From farmer@cse.ucsc.edu Tue Jun 6 04:30:08 2000 Return-Path: Received: from alpha.cse.ucsc.edu (alpha.cse.ucsc.edu [128.114.48.14]) by cyborg.bioinfo.pl (8.9.3/8.8.7) with SMTP id EAA28826 for Message-Id: <200006060234.TAA16440@alpha.cse.ucsc.edu> Subject: T0095(target 99 alignment) MIME-Version: 1.0 Content-type: multipart/mixed; Boundary="simple mime boundary" Apparently-To: T0095.target99@cafasp.bioinfo.pl --simple mime boundary Content-type: text/plain; charset=us-ascii The following is the Target99 alignment in the formats you requested. Citation: K. Karplus, C. Barrett, and R. Hughey, Hidden Markov Models for Detecting Remote Protein Homologies, Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. http://www.cse.ucsc.edu/resesarch/compbio/HMM-apps -------------------------------------------------------- For questions or problems, please see the SAM-T99 FAQ at http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html or email us at sam-info@cse.ucsc.edu --simple mime boundary Content-type: text/plain; charset=us-ascii; name='t99-results-960258856.t99align.a2m' Content-Disposition: attachment; filename="t99-results-960258856.t99align.a2m" >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLACSISNNEEGV KLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLFKEQWEKQVRVLTDAVDDITS IDDFLAVSENHILEDVNKCVIALQEKDVDGLDRTAGAIRGRAARVIHVVTSEMDNYEPGV YTEKVLEATKLLSNTVMPRFTEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRK AVLM >gi|6753294|ref|NP_033948.1|_388:631 catenin alpha 1gi|117607|sp|P26231|CTN1_MOUSE ALPHA-1 CATENIN (102 KD CADHERIN-ASSOCIATED PROTEIN) (CAP102) (ALPHA E-CATENIN)gi|90338|pir||A39529 cadherin-associated protein, 102K - mousegi|49935|emb|CAA42607.1| (X59990) alpha-catenin [Mus musculus]gi|220361|dbj|BAA14376.1| (D90362) cadherin associated protein [Mus musculus] navrqalqdllseymgnagrkersdalnsaidkmtkktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLMirtpee lddsdfetedfdvrsrtsvqteddqliagqsaraimaqlpqeqk >gi|461853|sp|P35221|CTN1_HUMAN_388:631 ALPHA-1 CATENIN (CADHERIN-ASSOCIATED PROTEIN) (ALPHA E-CATENIN)gi|484373|pir||JN0607 alpha-catenin - humangi|433411|dbj|BAA02979.1| (D13866) alpha-catenin [Homo sapiens]gi|4092761|gb|AAC99459.1| (AF102803) alphaE-catenin [Homo sapiens] navrqalqdllseymgnagrkersdalnsaidkmtkktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLMirtpee lddsdfetedfdvrsrtsvqteddqliagqsaraimaqlpqeqk >gi|2134736|pir||I39438_388:631 alpha-catenin - humangi|404105|dbj|BAA03530.1| (D14705) 'human alpha-catenin' [Homo sapiens]gi|1092190|prf||2023176A alpha catenin [Homo sapiens] navrkalqdllseymgnagrkersdalnsaidkmtkktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLMirtpee lddsdfetedfdvrsrtsvqteddqliagqsaraimaqlpqeqk >gi|117609|sp|P26232|CTN2_HUMAN_386:629 ALPHA-2 CATENIN (ALPHA-CATENIN RELATED PROTEIN) (ALPHA N-CATENIN)gi|345780|pir||A45011 CAP-R protein - human navrqalqdllseymnntgrkekgdplniaidkmtkktrdlrrqlrkavm DHISDSFLETNVPLLVLIEAAKSGNEKEVKEYAQVFREHANKLVEVANLA CSISNNEEGVKLVRMAATQIDSLCPQVINAALTLAARPQSKVAQDNMDVF KDQWEKQVRVLTEAVDDITSVDDFLSVSENHILEDVNKCVIALQEGDVDT LDRTAGAIRGRAARVIHIINAEMENYEAGVYTEKVLEATKLLSETVMPRF AEQVEVAIEALSANVPQPFEENEFIDASRLVYDGVRDIRKAVLMirtpee leddsdfeqedydvrrgtsvqteddqliagqsaraimaqlpqee >gi|7656999|ref|NP_004380.1|_386:629 catenin (cadherin-associated protein), alpha 2gi|6960317|gb|AAA58407.2| (M94151) cadherin-associated protein-related [Homo sapiens] navrqalqdllseymnntgrkekgdplniaidkmtkktrdlrrqlrkavm DHISDSFLETNVPLLVLIEAAKSGNEKEVKEYAQVFREHANKLVEVANLA CSISNNEEGVKLVRMAATQIDSLCPQVINAALTLAARPQSKVAQDNMDVF KDQWEKQVRVLTEAVDDITSVDDFLSVSENHILEDVNKCVIALQEGDVDT LDRTAGAIRGRAARVIHIINAEMENYEAGVYTEKVLEATKLLSETVMPRF AEQVEVAIEALSANVPQPFEENEFIDASRLVYDGVRDIRKAVLMirtpee leddsdfeqedydvrrgtsvqteddqliagqsaraimaqlpqee >gi|399311|sp|P30997|CTN2_CHICK_387:630 ALPHA-2 CATENIN (ALPHA N-CATENIN) (NEURAL ALPHA-CATENIN)gi|283862|pir||A43000 alpha N-catenin - chickengi|222788|dbj|BAA01863.1| (D11090) alpha N-catenin [Gallus gallus] ravrqalqdllseymnntgrkekgdplniaidkmtkktrdlrrqlrkavm DHISDSFLETNVPLLVLIEAAKSGNEKEVKEYAQVFREHANKLVEVANLA CSISNNEEGVKLVRMAATQIDSLCPQVINAALTLAARPQSKVAQDNMDVF KDQWEKQVRVLTEAVDDITSVDDFLSVSENHILEDVNKCVIALQEGDVDT LDRTAGAIRGRAARVIHIINAEMENYETGVYTEKVLEATKLLSETVMPRF AEQVEVAIEALSANVPQPFEENEFIDASRLVYDGVRDIRKAVLMirtpee leddsdfeqedydvrsrtsvqteddqliagqsaraimaqlpqee >gi|1199644|gb|AAA88906.1|_385:628 (U47624) alpha(E)-catenin [Xenopus laevis] nsvrqalqdllseymgntgrkergdalnsaidkmtrktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRISAGQLESLCPQVINAALALAAKPNSKMAQENMDLY KEQWERQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQERDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGIYTEKVLEATKLLTNTVMPRF TEQVEAAVEALSGDTNQTMDENEFIDASRLVYDGVRDIRKAVLMirtpee lddsdfetedfdvrsrtsvqteddqliagqsaraimaqlpqeqk >gi|2137136|pir||I49499_386:629 alpha N-catenin I - mousegi|475008|dbj|BAA04969.1| (D25281) alpha N-catenin I [Mus musculus] navrqalqdllsedmnntgrkekgdplniaidkmtkktrdlrrqlrkavm DHISDSFLETNVPLLVLIEAAKSGNEKEVKEYAQVFREHANKLVEVANLA CSISNNEEGVKLVRMAATQIDSLCPQVINAALTLAARPQSKVAQDNMDVF KDQWEKQVRVLTEAVDDITSVDDFLSVSENHILEDVNKCVIALQEGDVDT LDRTAGAIRGRAARVIHIINAEMENYEAGVYTEKVLEATKLLSETVMPRF AEQVEVAIEALSANVPQPFEENEFIDASRLVYYGVRDIRKAVLMirtpee leddsdfeqedydvrsrtsvqtedrqliagqsaraimaqlpqee >gi|6753296|ref|NP_033949.1|_386:629 catenin alpha 2gi|2501658|sp|Q61301|CTN2_MOUSE ALPHA-2 CATENIN (ALPHA-CATENIN RELATED PROTEIN) (ALPHA N-CATENIN)gi|2137137|pir||I49500 alpha N-catenin II - mousegi|475010|dbj|BAA04970.1| (D25282) alpha N-catenin II [Mus musculus] navrqalqdllsedmnntgrkekgdplniaidkmtkktrdlrrqlrkavm DHISDSFLETNVPLLVLIEAAKSGNEKEVKEYAQVFREHANKLVEVANLA CSISNNEEGVKLVRMAATQIDSLCPQVINAALTLAARPQSKVAQDNMDVF KDQWEKQVRVLTEAVDDITSVDDFLSVSENHILEDVNKCVIALQEGDVDT LDRTAGAIRGRAARVIHIINAEMENYEAGVYTEKVLEATKLLSETVMPRF AEQVEVAIEALSANVPQPFEENEFIDASRLVYYGVRDIRKAVLMirtpee leddsdfeqedydvrsrtsvqtedrqliagqsaraimaqlpqee >gi|4503127|ref|NP_001894.1|_388:632 catenin (cadherin-associated protein), alpha 1 (102kD)gi|1172426|gb|AAA86430.1| (L23805) alpha1(E)-catenin [Homo sapiens] navrqacrtcvseymgnagrkersdalnsaidkmtkktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEAGCPQVINAAtWALAPKPQSKLAQENMDL FKEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVD GLDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPR FTEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLMirtpe elddsdfetedfdvrsetsvqteddqliagqsaraimaqlpqeqk >gi|1082187|pir||JC2542_388:632 alpha-2(E)-catenin - humangi|414982|gb|AAA18949.1| (U03100) alpha2(E)-catenin [Homo sapiens] navrqacrtcvseymgnagrkersdalnsaidkmtkktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEAGCPQVINAAtWALAPKPQSKLAQENMDL FKEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVD GLDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPR FTEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLMirtpe elddsdfetedfdvrsetsvqteddqliagqsaraimaqlpqeqk >gi|5929689|gb|AAD56591.1|AF099737_1_388:631 (AF099737) cell-adhesion protein alphaE catenin [Danio rerio] nsvrqalqdllseymgnagrkeksdalntaidrmtkktrdlrrqlrkavm DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMAASQLETLCPQVINAALALAAKPNSKVAQDNMDLF KDQWEKQVRVLTDAVDDITSIDDFLCVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVVHVVTSEMDNYMPGVYTEKVLEATKLLTETVMPRF TEQVEAAVEALSANNGQPVDENEFIDASRLVYDGVRDIRKAVLMirtpee lddsdfetedfdsrsrtsvqteddqliagqsaraimaqlpqeqk >gi|1098900|gb|AAA82613.1|_383:626 (U34687) alpha catenin [Lytechinus variegatus] navrqalqdllseymncagsrdrsdpldeaiermckktkdlrrqlrkavv DHVSDSFLETNVPLLVLIVAAKSGNEAEVEKYAKVFQEHANKLVEVANLA CSMSNNEEGVKMVRMAATQIENLCPQVINAARILVARPRSKAAQDNMDVF KDQWETQVRLLTEAVDEITTIDDFLAVSESHILEDVNRCVMALHQQDPET LDLTANSVKGRSARICTVVNSEMLNYEPGLYTDKVKEAVNILKNEVIPHF SNMVEIAVDALSSQPPKDTEENEFVDASRMVYDGVREIRRAVLMnrnpde ietdtevdyeeeydvkskssyqtepyeledvqegvtsrammrdl >gi|7289861|gb|AAF45466.1|_391:634 (AE002656) alpha-Cat gene product [Drosophila melanogaster] navrqalqdllseymsnmsqkdnspglsraidqmcrktrdlrrqlrkavv DHVSDSFLETTTPLLDLIEAAKSGNEKKVREKSEIFTKHAEKLVEVANLV CSMSNNEDGVKMVRYAAAQIESLCPQVINAASILTVRPNSKVAQENMTTY RQAWEVQVRILTEAVDDITTIDDFLAVSENHILEDVNKCVMALQVGDARD LRATAGAIQGRSSRVCNVVEAEMDNYEPCIYTKRVLEAVKVLRDQVMMKF DQRVGAAVGALSNNSNKDVDENDFIDASRLVYDGVREIRRAVLMnrssed ldtdtefepvedltletrsrssahtgdqtvdeypdisgictare >gi|461852|sp|P35220|CTNA_DROME_409:652 ALPHA-CATENINgi|422436|pir||A40694 cadherin-associated protein D alpha-catenin - fruit fly (Drosophila melanogaster)gi|285752|dbj|BAA03067.1| (D13964) alpha-catenin [Drosophila melanogaster] navrqalqdllseymsnmsqkdnspglsraidqmcrktrdlrrqlrkavv DHVSDSFLETTTPLLDLIEAAKSGNEKKVREKSEIFTKHAEKLVEVANLV CSMSNNEDGVKMVRYAAAQIESLCPQVINAASILTVRPNSKVAQENMTTY RQAWEVQVRILTEAVDDITTIDDFLAVSENHILEDVNKCVMALQVGDARD LRATAGAIQGRSSRVCNVVEAEMDNYEPCIYTKRVLEAVKVLRDQVMMKF DQRVGAAVGALSNNSNKDVDENDFIDASRLVYDGVREIRRAVLMnrssed ldtdtefepvedltletrsrssahtgdqtvdeypdisgictare >gi|7019571|ref|NP_037398.1|_383:626 alpha-catenin-like proteingi|6650345|gb|AAF21801.1|AF091606_1 (AF091606) alpha-catenin-like protein VR22 [Homo sapiens] nairqalqdllseymnnagkkersntlnialdnmckktrdlrrqlrkaii DHVSDSFLDTTVPLLVLIEAAKNGREKEIKEYAAIFHEHTSRLVEVANLA CSMSTNEDGIKIVKIAANHLETLCPQIINAALALAARPKSQAVKNTMEMY KRTWENHIHVLTEAVDDITSIDDFLAVSESHILEDVNKCIIALRDQDADN LDRAAGAIRGRAARVAHIVTGEMDSYEPGAYTEGVMRNVNFLTSTVIPEF VTQVNVALEALSKSSLNVLDDNQFVDISKKIYDTIHDIRCSVMMirtpee ledvsdleeehevrshtsiqtegktdrakmtqlpeaekekiaeq >gi|6724323|ref|NP_033528.1|_593:837 vinculingi|3287937|sp|Q64727|VINC_MOUSE VINCULINgi|7441354|pir||T10108 vinculin - mousegi|309533|gb|AAB96843.1| (L18880) vinculin [Mus musculus] akcdrvdqltaqladlaargegespqaralasqlqdslkdlkaqmqeamt QEVSDVFSDTTTPIKLLAVAATappdaPNREEVFDERAANFENHSGRLGA TAEKAaAVGTANKSTVEGIQASVKTARELTPQVISAARILLRNPGNQAAY EHFETMKNQWIDNVEKMTGLVDEAIDTKSLLDASEEAIKKDLDKCKVAMA NIQPQMLVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSK TISPMVMD-----AKAVAGNISDPDLQKSFLDSGYRILGAVAKVREAFQP qepdfpppppdleqlrltdelappkpplpegevppprppppeekdeefpe >gi|4507877|ref|NP_003364.1|_593:837 vinculin isoform VCLgi|138547|sp|P18206|VINC_HUMAN VINCULINgi|340237|gb|AAA61283.1| (M33308) vinculin [Homo sapiens] akcdrvdqltaqladlaargegespqaralasqlqdslkdlkarmqeamt QEVSDVFSDTTTPIKLLAVAATappdaPNREEVFDERAANFENHSGKLGA TAEKAaAVGTANKSTVEGIQASVKTARELTPQVVSAARILLRNPGNQAAY EHFETMKNQWIDNVEKMTGLVDEAIDTKSLLDASEEAIKKDLDKCKVAMA NIQPQMLVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSK TISPMVMD-----AKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQP qepdfpppppdleqlrltdelappkpplpegevppprppppeekdeefpe >gi|7669550|ref|NP_054706.1|_593:837 VCL isoform meta-VCLgi|2144821|pir||A35955 meta-vinculin - human akcdrvdqltaqladlaargegespqaralasqlqdslkdlkarmqeamt QEVSDVFSDTTTPIKLLAVAATappdaPNREEVFDERAANFENHSGKLGA TAEKAaAVGTANKSTVEGIQASVKTARELTPQVVSAARILLRNPGNQAAY EHFETMKNQWIDNVEKMTGLVDEAIDTKSLLDASEEAIKKDLDKCKVAMA NIQPQMLVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSK TISPMVMD-----AKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQP qepdfpppppdleqlrltdelappkpplpegevppprppppeekdeefpe >gi|138546|sp|P12003|VINC_CHICK_593:837 VINCULINgi|212873|gb|AAA49136.1| (J04126) vinculin [Gallus gallus] akcdrvdqlaaqladlaargegespqaraiaaqlqdslkdlkarmqeamt QEVSDVFSDTTTPIKLLAVAATapsdtPNREEVFEERAANFENHAARLGA TAEKAaAVGTANKTTVEGIQATVKSARELTPQVVSAARILLRNPGNQAAY EHFETMKNQWIDNVEKMTGLVDEAIDTKSLLDASEEAIKKDLDKCKVAMA NMQPQMLVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSK TISPMVMD-----AKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQP qepdfpppppdlehlhltdelappkpplpegevppprppppeekdeefpe >gi|2144822|pir||A29997_593:837 meta-vinculin - chicken akcdrvdqlaaqladlaargegespqaraiaaqlqdslkdlkarmqeamt QEVSDVFSDTTTPIKLLAVAATapsdtPNREEVFEERAANFENHAARLGA TAEKAaAVGTANKTTVEGIQATVKSARELTPQVVSAARILLRNPGNQAAY EHFETMKNQWIDNVEKMTGLVDEAIDTKSLLDASEEAIKKDLDKCKVAMA NMQPQMLVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSK TISPMVMD-----AKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQP qepdfpppppdlehlhltdelappkpplpegevppprppppeekdeefpe >gi|63880|emb|CAA68412.1|_593:837 (Y00312) vinculin (AA 1-882) (2891 is 2nd base in codon) [Gallus gallus] akcdrvdqlaaqladlaargegespqaraiaaqlqdslkdlkarmqeamt QEVSDVFSDTTTPIKLLAVAATapsdtPNREEVFEERAANFENHAARLGA TAEKAaAVGTANKTTVEGIQATVKSARELTPQVVSAARILLRNPGNQAAY EHFETMKNHWIDNVEKMTGLVDEAIDTKSLLDASEEAIKKDLDKCKVAMA NMQPQMLVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSK TISPMVMD-----AKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQP qepdfpppppdlehlhltdelappkpplpegevppprppppekkg >gi|2655896|emb|CAA15646.1|_443:688 (AL009171) 62D9.i [Drosophila melanogaster] hqkaeiqqlcdeverlkrqaagsgpaakqaakqltqklyelkaaiqnalv NRIVQDFMDVSTPLKQFTEAVLqpegtPGREQNFNQKSNNLQAFSDRASK TSRMVaaGGACGNKKIAEILLSSAAQVDSLTPQLISAGRIRMNYPGSKAA DEHLQNLKQQYADTVLRMRTLCDQATDPADFIKTSEEHMQVYAKLCEDAI HARQPQKMVDNTSNIARLINRVLLVAKQEADNSEDPVFTERLNAAANRLE RSLPAMVGD-----AKLVATNIADPAAAAAWKNSFQRLLGDVREVRDAIA Ppqppplptslpppipelsalhlsnqnaerapprpplpreglapvrpppp e >gi|2827490|emb|CAA15691.1|_478:723 (AL009193) EG:103B4.1 [Drosophila melanogaster]gi|7290291|gb|AAF45752.1| (AE003423) Vinc gene product [Drosophila melanogaster] hqkaeiqqlcdeverlkrqaagsgpaakqaakqltqklyelkaaiqnalv NRIVQDFMDVSTPLKQFTEAVLqpegtPGREQNFNQKSNNLQAFSDRASK TSRMVaaGGACGNKKIAEILLSSAAQVDSLTPQLISAGRIRMNYPGSKAA DEHLQNLKQQYADTVLRMRTLCDQATDPADFIKTSEEHMQVYAKLCEDAI HARQPQKMVDNTSNIARLINRVLLVAKQEADNSEDPVFTERLNAAANRLE RSLPAMVGD-----AKLVATNIADPAAAAAWKNSFQRLLGDVREVRDAIA Ppqppplptslpppipelsalhlsnqnaerapprpplpreglapvrpppp e >gi|1228974|emb|CAA65421.1|_478:723 (X96601) vinculin [Drosophila melanogaster] hqkaeiqqlcdeverlkrqaagsgpaakqaakqltqklyelkaaiqnalv NRIVQDFMDVSTPLKQFTEAVLqpegtPGREQNFNQKSNNLQAFSDRASK TSRMVaaGGACGNKKIAEILLSSAAQVDSLTPQLISAGRIRMNYPGSKAA DEHLQNLKQQYADTVLRMRTLCDQATDPADFIKTSEEHMQVYAKLCEDAI HARQPQKMVDNTSNIARLINRVLLVAKQEADNSEDPVFTERLNAAANRLE RSLPAMVGD-----AKLVATNIADPRAAAAWKNSFQRLLGDVREVRDAIA Ppqppplptslpppipelsalhlsnqnaerapprpplpreglapvrrppp p >gi|2738780|gb|AAB94551.1|_382:640 (AF016852) HMP-1 [Caenorhabditis elegans]gi|6434310|emb|CAB61019.1| (Z81579) predicted using Genefinder~Similarity to Drosophila alpha-catenin (SW:CTNA_DROME)~cDNA EST EMBL:D35134 comes from this gene~cDNA EST EMBL:D64641 comes from this gene~cDNA EST EMBL:D65067 comes from this gene~cDNA EST EMBL:D65241 comes from thi> nnlrqalqellteyekstgrrddnddiplgiaevhkrtkdlrrhlrraiv DHISDAFLDTRTPLILLIEAAKEGHEENTRYRSKMFQEHANEIVSVARLS CQLSSDVESVSVIQHTAAQLEKLAPQVAQAAILLCHQPTSKTAQENMETY KNAWFDKVRLLTTALDNITTLDDFLAVSEAHIVEDCERGIKGItanastp deNAANCETVDCAAGSIRGRALRVCDVVDAEMDFLQNSEYTETVKQAVRI LKTQRVDQFAERasalaNRQEAHGLTWDPKTKEEEmNEFINACTLVHDAV KDIRHALLMnrsmndvdsdveyeadgvgaanadanrtiseqenqqnlmrr lpeeekkki >gi|7506721|pir||T24221_415:673 hypothetical protein R13H4.4 - Caenorhabditis elegans nnlrqalqellteyekstgrrddnddiplgiaevhkrtkdlrrhlrraiv DHISDAFLDTRTPLILLIEAAKEGHEENTRYRSKMFQEHANEIVSVARLS CQLSSDVESVSVIQHTAAQLEKLAPQVAQAAILLCHQPTSKTAQENMETY KNAWFDKVRLLTTALDNITTLDDFLAVSEAHIVEDCERGIKGItanastp deNAANCETVDCAAGSIRGRALRVCDVVDAEMDFLQNSEYTETVKQAVRI LKTQRVDQFAERasalaNRQEAHGLTWDPKTKEEEmNEFINACTLVHDAV KDIRHALLMnrsmndvdsdveyeadgvgaanadanrtiseqenqqnlmrr lpeeekkki >gi|138545|sp|P19826|VINC_CAEEL_489:731 VINCULIN (P107B)gi|156276|gb|AAA28002.1| (J04804) vinculin [Caenorhabditis elegans] glcsdidrlaaqladlerrglgnspeahqirnqlknalrdlgdfmrrvlt DRVVDDFADITTPLKQFVEAVHadpydPNREQNFVDKSQRLTDHSQSMTT TARLVasCGPSKSKKTVEAILDTAEKVEQLTPQLVNAGRVRLHNPGSE-- -QHFENIHKQYADALHRLRSHVDDAIDTGEFVRASETAMRRYTNHCEGAI NGADAHGLVNNSSQIARLGNRVLMTAQNEADNSEEPSFVSRVRNAADQLH NAIPPMVNN-----AKQIAQNPHDQYAAQNWRGTNDHLLNSVRAVGDAIT Gvpmsngrhssyqesisraspynppppssqvirsvnaspptapiihnkmi i >gi|102552|pir||A33509_489:731 vinculin - Caenorhabditis elegans glcsdidrlaaqladlerrglgnspeahqirnqlknalrdlgdfmrrvlt DRVVDDFADITTPLKQFVEAVHadpydPNREQNFVDKSQRLTDHSQSMTT TARLVasCGPSKSKKTVEAILDTAEKVEQLTPQLVNAGRVRLHNPGSE-- -QHFENIHKQYADALHRLRSHVDDAIDTGEFVRASETAMRRYTNHCEGAI NGADAHGLVNNSSQIARLGNRVLMTAQNEADNSEEPSFVSRVRNAADQLH NAIPPMVNN-----AKQIAQNPHDQYAAQNWRGTNDHLLNSVRAVGDAIT Gvpmsngrhssyqesisraspynppppssqvirsvnaspptapiihnkmi i >gi|510684|gb|AAB96842.1|_488:732 (U07023) vinculin [Brugia malayi] dlcveidrqadqladlehrglgnppaahairnqlrnklrelvdimkkvit DRVVEDFADISTPLKQFVDAVYasptiVNRELSFEEKAHNLDDHSSRCAN TALLVakCGPCKNKKTVEAIIEAANQVNAMTPQVIKAGKIRL-HNDSDSA NLHFDNLRREYSDVLNRLRSHVDDAIDTSDFIRASEQAMRQYTVYCENAI RNNEPQQMVDNTSQIARFGNRVLMTAKNEADNSEEPSFVHRVNNAARRLH SAIPPMVNQ-----AKQVALNPRHGGNAQSWRDANEHLLSAVRQVGDAIT Gaggsrppsqnllvesvppkaptspivhdriyirediptpprppppveis p >gi|6403442|gb|AAF07819.1|AF135021_1_410:585 (AF135021) alpha2-catulin [Homo sapiens]gi|6403462|gb|AAF07820.1| (AF134888) alpha2-catulin [Homo sapiens] lisvwiqaqskktksiaeelelsilkishslnelkkelhstatqlaadll -----KYHADHVVLKALKLTGVEGNLEALAEYACKLSEQKEQLVETCRLL RHISGTE----PLEITCIHAEEtfqvTGQQIISAAETLTLHPSSKIAKEN LDVFCEAWESQISDMSTLLREINDVFE----------------------- ------------GRRG------------------------EKYGYLSLPK PM----KNNANLKSLKPDKPDSEEQAKIAKLGLKLGLLTSDADCEIEKwe dqeneivqygrnmssmayslylftrgegplktsqdlihqlevfaaegl >gi|4503129|ref|NP_003789.1|_410:585 catenin (cadherin-associated protein), alpha-like 1gi|3309105|gb|AAC26011.1| (AF006070) alpha-catenin related protein [Homo sapiens]gi|3342778|gb|AAC27693.1| (U97067) alpha-catenin-like protein [Homo sapiens]gi|3818590|gb|AAC69576.1| (AF080071) alpha-catenin-like protein; CG-4 [Homo sapiens]gi|3982579|gb|AAC83460.1| (AF030233) alpha-catenin-like protein [Homo sapiens]gi|6403463|gb|AAF07821.1| (AF134888) alpha-catulin [Homo sapiens] lisvwiqaqskktksiaeelelsilkishslnelkkelhstatqlaadll -----KYHADHVVLKALKLTGVEGNLEALAEYACKLSEQKEQLVETCRLL RHISGTE----PLEITCIHAEEtfqvTGQQIISAAETLTLHPSSKIAKEN LDVFCEAWESQISDMSTLLREINDVFE----------------------- ------------GRRG------------------------EKYGYLSLPK PM----KNNANLKSLKPDKPDSEEQAKIAKLGLKLGLLTSDADCEIEKwe dqeneivqygrnmssmayslylftrgegplktsqdlihqlevfaaegl >gi|3309107|gb|AAC26012.1|_409:584 (AF006071) alpha-catenin related protein [Mus musculus] llsvwmqtqsrktksaaeeleltvlkishsldelrrelhctamqlaadll -----KFHADHVVLKALKVTGVEGNLEALAEYACKLSEQKEQLVETCRLL RHISGTE----PLEITCIHAEEtfqvTGQQIISAAETLTLHPSSKIAKEN LDVFCEAWESQMSDMATLLREISDVFE----------------------- ------------GRRG------------------------ERCDHLSLPK PT----KNSANLKSLKPDKPDSEEQAKIAKLGLKLGLLSSDADCEIEKwe deeneivrhgrnmsrmayslylftrgegplktsqdlihflevfaaegl >gi|7512278|pir||T08703_49:206 alpha-catenin homolog DKFZp564C1969.1 - human (fragment)gi|4884263|emb|CAB43238.1| (AL050016) hypothetical protein [Homo sapiens] ikefkmniealrenlyfqskenlsvtlevilermedftdsaytshehrER ILELSTQARMELQQLISVWIQAQSKKTKSIAEELEL-------------- ---------SILKISHSLNELKKEIISAAETLTLHPSSKIAKENLDVFCE AWESQISDMSTLLREINDVFE----------------------------- ------GRRG------------------------EKYGYLSLPKPM---- KNNANLKSLKPDKPDSEEQAKIAKLGLKLGLLTSDADCEIEKwedqenei vqygrnmssmayslylftrgegplktsqdlihqlevfaaegl >gi|5701589|gb|AAC64632.2|_397:550 (AF077541) Y23H5A.6 gene product [Caenorhabditis elegans] dfleecrfemtnliqpdeneqlaasglevtverlnrrlkdlskqlqivam EQISEVLRanEDQVLLSSMKACAVSGDIDGVEKYMHKFREHADHMQEVCR LLHHISITD----ALHVHTGHVERnmraLAPLTILAGRTLCVHPSSRIAR ENLEVFCDTWGQAVNDLSRVAKE-SDVAA--------------------- --------------NGRVAA----------------------EKQAYMSL PRPG-VSK---------------------------------SSCRRSVPK hdaasssssnellpnggrhpkqvgiaptrvvsqtgdeassdeeqvdkqei >gi|2687496|gb|AAB88839.1|_97:165 (U87554) alpha catenin [Drosophila grimshawi] navrqalqdllseymsnmgqkdnspgldraidqmcrktrdlrrqlrkavv DHVSDSFLETTTPLIDLIDAAKSGNEKKVREKAEIFTKHAEKLVEVANLV CSMSNNEDGVKMVRYAAAQ------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------- --simple mime boundary-- From farmer@cse.ucsc.edu Tue Jun 6 06:28:25 2000 Return-Path: Received: from alpha.cse.ucsc.edu (alpha.cse.ucsc.edu [128.114.48.14]) by cyborg.bioinfo.pl (8.9.3/8.8.7) with SMTP id GAA29437 for Message-Id: <200006060432.VAA30419@alpha.cse.ucsc.edu> Subject: T0095(database hits) MIME-Version: 1.0 Content-type: multipart/mixed; Boundary="simple mime boundary" Apparently-To: T0095.target99@cafasp.bioinfo.pl --simple mime boundary Content-type: text/plain; charset=us-ascii The following are search results using the SAM-T99 method for a sequence query against a database. If there are no hits associated with this output, then your score cutoff was too conservative. Citation: K. Karplus, C. Barrett, and R. Hughey, Hidden Markov Models for Detecting Remote Protein Homologies, Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. http://www.cse.ucsc.edu/resesarch/compbio/HMM-apps -------------------------------------------------------- For questions or problems, please see the SAM-T99 FAQ at http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html or email us at sam-info@cse.ucsc.edu --simple mime boundary Content-type: text/plain; charset=us-ascii Content-Disposition: attachment; filename="t99-results-960258856.t99dbhits.txt" The E-value is an estimate of approximately how many sequences would score this well by chance in the database searched. For SAM-T99, E-values less than about 0.01 are roughly equivalent, as sequences that score that well have most likely already been included in the SAM-T99 multiple alignment. Database: PDB Score method: average Summary of Database Hits: Average Target Template SeqID Reverse EValue Reverse EValue Reverse EValue SeqLabel 1bjwA -8.12 6.664 --------- --------- -8.12 6.7 1schA -7.72 9.94 -7.72 10 --------- --------- : mol:protein-het length:294 Peanut Peroxidase, Major Cationic Isozym 1schB -7.72 9.94 -7.72 10 --------- --------- : mol:protein-het length:294 Peanut Peroxidase, Major Cationic Isozym 2tmaA -7.33 14.68 -7.33 15 --------- --------- : mol:protein length:284 Tropomyosin - Chain A 2tmaB -7.33 14.68 -7.33 15 --------- --------- : mol:protein length:284 Tropomyosin - Chain B 1d2fA -6.97 21.03 --------- --------- -6.97 21 1fwgC -6.87 23.24 -6.87 23 --------- --------- : mol:protein-het length:567 Urease 1a5lC -6.6 30.44 -6.6 31 --------- --------- : mol:protein length:566 Urease 1fwaC -6.58 31.05 -6.58 31 --------- --------- : mol:protein-het length:567 Urease 1fwbC -6.58 31.05 -6.58 31 --------- --------- : mol:protein-het length:567 Urease 1fwcC -6.58 31.05 -6.58 31 --------- --------- : mol:protein-het length:567 Urease 1fwdC -6.58 31.05 -6.58 31 --------- --------- : mol:protein-het length:567 Urease 1fweC -6.58 31.05 -6.58 31 --------- --------- : mol:protein-het length:567 Urease 1krcC -6.55 32 -6.55 32 --------- --------- : mol:protein length:567 Urease 1c1gA -6.45 35.36 -6.45 35 --------- --------- : mol:protein length:284 Tropomyosin 1c1gB -6.45 35.36 -6.45 35 --------- --------- : mol:protein length:284 Tropomyosin 1c1gC -6.45 35.36 -6.45 35 --------- --------- : mol:protein length:284 Tropomyosin 1c1gD -6.45 35.36 -6.45 35 --------- --------- : mol:protein length:284 Tropomyosin 1b8gA -6.41 36.8 --------- --------- -6.41 37 1fwfC -6.34 39.46 -6.34 40 --------- --------- : mol:protein-het length:567 Urease --simple mime boundary Content-type: text/plain; charset=us-ascii; name='t99-results-960258856.t99pairwise.a2m' Content-Disposition: attachment; filename="t99-results-960258856.t99pairwise.a2m" >T0095 dh---------------VSDSFLE-------------------TNVPLLV LIEAAKNGNEKEVKEY-----AQVFREHANKLI-----------EVANLA CSISNNEEGVKLVRm----------------------------------- -----SASQLEALCpqVINAALALAAKPQSKLAQEN----M----DLFKE qweKQVRVLTDAVdDITSIDDFLAVSENHILEDVNKCVIALQeKDVDGLD RTAGAI------RGRAARVIHVVTSEMdNYEPGVYTEKVLEA---TKLLS NTVMPRFTEQVEAAVEAL----sSDPAQPMD------------ENEFIDA SRLVYDGI-----------RDIRKAVLm----------------- >1bjwA mol:protein-het length:382 Aspartate Aminotransferase MRGLSRRVQAMKPSATVAVNAKALELRRQGVDLVALTAGEPDFDTPEHVK EAARRALAQGKTKYAPPAGIPELREALAEKFRRENGLSVTPEETIVTVGG KQALFNLFQAILDPGDEVIVLSPYWVSYPEMVRFAGGVVVEVETLPEEGF VPDPERVRRAITPRTKALVVNSPNNPTGAVYPKEVLEALARLAVEHDFYL VSDEIYEHLLYEGEHFSPGRVAPEHTLTVNGAAXAFAMTGWRIGYACGPK EVIKAMASVSSQSTTSPDTIAQWATLEALTNQEASRAFVEMAREAYRRRR DLLLEGLTALGLKAVRPSGAFYVLMDTSPIAPDEVRAAERLLEAGVAVVP GTDFAAFGHVRLSYATSEENLRKALERFARVL >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1schA mol:protein-het length:294 Peanut Peroxidase, Major Cationic Isozym xlssnfyatkcpnalstiksavnsavakearmgasllrlhfhdcfvqgcd asvllddtsnftgektagpnansi-------------------------- -------------------------------RGFEVIDTIKSQVESLCPG VVSCADILAV---------------------------------------- -------------------------------------------------- -------------------------------------------------- ------------------aardsvvalggaswnvllgrrdsttaslssan sdlpapffnlsglisafsnkgfttkelvtlsgahtigqaqctafrtriyn esnidptyakslqancpsvggdtnlspfdvttpnkfdnayyinlrnkkgl lhsdqqlfngvstdsqvtaysnnaatfntdfgnamikmgnlspltgtsgq irtncrktn >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1schB mol:protein-het length:294 Peanut Peroxidase, Major Cationic Isozym xlssnfyatkcpnalstiksavnsavakearmgasllrlhfhdcfvqgcd asvllddtsnftgektagpnansi-------------------------- -------------------------------RGFEVIDTIKSQVESLCPG VVSCADILAV---------------------------------------- -------------------------------------------------- -------------------------------------------------- ------------------aardsvvalggaswnvllgrrdsttaslssan sdlpapffnlsglisafsnkgfttkelvtlsgahtigqaqctafrtriyn esnidptyakslqancpsvggdtnlspfdvttpnkfdnayyinlrnkkgl lhsdqqlfngvstdsqvtaysnnaatfntdfgnamikmgnlspltgtsgq irtncrktn >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >2tmaA mol:protein length:284 Tropomyosin - Chain A mdaikkkmqmlkldkenaldraeqaeadkkaaedrskqledelvslqkkl kgtedeldkysealkdaqeklelaekkatdaeadvaslnrriqlveeeld raqerlatalqkleeaekaadesergmkviesraqkdeekmeiqeiqlke akhiaedadrkyeevarklviiesdleraeeraelsegkcaeleeeiktv tnnlksleaqaekysqke-------------------------------- -------------------------------------------------- -------------------DKYEEEIKVLSDKLKEAETRAEFAERSVTKL EKSIDDLEDELYAQKLK--------------------------------- -------------------------------------------------- ------------ykaiseeldhalndmtsi >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >2tmaB mol:protein length:284 Tropomyosin - Chain B mdaikkkmqmlkldkenaldraeqaeadkkaaedrskqledelvslqkkl kgtedeldkysealkdaqeklelaekkatdaeadvaslnrriqlveeeld raqerlatalqkleeaekaadesergmkviesraqkdeekmeiqeiqlke akhiaedadrkyeevarklviiesdleraeeraelsegkcaeleeeiktv tnnlksleaqaekysqke-------------------------------- -------------------------------------------------- -------------------DKYEEEIKVLSDKLKEAETRAEFAERSVTKL EKSIDDLEDELYAQKLK--------------------------------- -------------------------------------------------- ------------ykaiseeldhalndmtsi >T0095 dhvsdsfle---------TNVPLLVLIEAAKNGNEKEVKEYA---QV-FR EHANKLI-----------EVANLACSISNNEEGVKLVRmsasqlea---- -------LCPQVINAALALAAKPQSKLAQEN-----MDlfKEQWEKQV-- ----------------RVLT--DA---------------VDDITSIDDFL AVSENHILEDV---NKCVIALQeKDVDGLDRTAGAIRGRAARVIHVVTSE MD----------------------NYEP-GVYTEKVLEATKLLSNTV--- ---MPRFTEQveaav--EALSSDPA-QPMDENEFIDASRL-----VYDG- ----------------------------IRDIR---kavlm >1d2fA mol:protein length:390 Maly Protein mfdfskvvdrhgtwctqwdyvadrfgtadLLPFTISDMDFATAPCIIEAL NQRLMHGVFGYSRWKNDEFLAAIAHWFSTQHYTAIDSQTVVYGPSVIYMV SELIRQWSETGEGVVIHTPAYDAFYKAIEGNQRTVMPVALEKQADGWFCD MGKLEAVLAKPECKIMLLCSPQNPTGKVWTCDELEIMADLCERHGVRVIS DEIHMDMVWGEQPHIPWSNVARGDWALLTSGSKSFNIPALTGAYGIIENS SSRDAYLSALKGRDGLSSPSVLALTAHIAAYQQGAPWLDALRIYLKDNLT YIADKMNAAFPELNWQIPQSTYLAWLDLRPLNIDDNALQKALIEQEKVAI MPGYTYGEEGRGFVRLNAGCPRSKLEKGVAGLINAIRAVR >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fwgC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegaggghapdiitacahpnilpsstnp tlpytlntidehldmlmvshhldp-------------------------- -------------------------------------------------- -------------------------------------------DIAEDVA FAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--------- -------------------------------------------------- ------------------rtwqvahrmkvqrgalaeetgdndnfrvkryi akytinpalthgiahevgsievgkladlvvwspaffgvkpatvikggmia iapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaangvaer lnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdgelitsep advlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1a5lC mol:protein length:566 Urease snisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkvi rdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkagn pdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsgv ttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvsq pdalreqvaagviglcihedwgatpaaidcaltvademdiqvalhsdtln esgfvedtlaaiggrtihtfhtegagggh--------------------- -------------------------------------------------- --APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVAHHLDPDI AEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL---- -------------------------------------------------- -----------------------rtwqvahrmkvqrgalaeetgdndnfr vkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvik ggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaan gvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdgel itsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fwaC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegagggh-------------------- -------------------------------------------------- ---APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVAHHLDPD IAEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--- -------------------------------------------------- ------------------------rtwqvahrmkvqrgalaeetgdndnf rvkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvi kggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaa ngvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdge litsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fwbC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegagggh-------------------- -------------------------------------------------- ---APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVAHHLDPD IAEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--- -------------------------------------------------- ------------------------rtwqvahrmkvqrgalaeetgdndnf rvkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvi kggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaa ngvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdge litsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fwcC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegagggh-------------------- -------------------------------------------------- ---APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVAHHLDPD IAEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--- -------------------------------------------------- ------------------------rtwqvahrmkvqrgalaeetgdndnf rvkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvi kggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaa ngvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdge litsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fwdC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegagggh-------------------- -------------------------------------------------- ---APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVAHHLDPD IAEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--- -------------------------------------------------- ------------------------rtwqvahrmkvqrgalaeetgdndnf rvkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvi kggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaa ngvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdge litsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fweC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegagggh-------------------- -------------------------------------------------- ---APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVAHHLDPD IAEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--- -------------------------------------------------- ------------------------rtwqvahrmkvqrgalaeetgdndnf rvkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvi kggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaa ngvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdge litsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1krcC mol:protein length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglkihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegagggh-------------------- -------------------------------------------------- ---APDIITACAHPNILPSST--NPTLPYTLNTIDEHLDMLMVCAHLDPD IAEDVAFAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--- -------------------------------------------------- ------------------------rtwqvahrmkvqrgalaeetgdndnf rvkryiakytinpalthgiahevgsievgkladlvvwspaffgvkpatvi kggmiaiapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaa ngvaerlnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdge litsepadvlpmaqryflf >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1c1gA mol:protein length:284 Tropomyosin mdaikkkmqmlkldkenaldradeaeadkkaaedrskqledelvslqkkl katedeldkysealkdaqeklelaekkatdaeadvaslnrriqlfeeeld raqerlatalqkleeaekaadesergmkviesraqkdeekmeiqeiqlke akhiaedadrkyeevarklviiesdleraeeraelsegkcaeleeeiktv tnnlksleaqaekysqke-------------------------------- -------------------------------------------------- -------------------DKYEEEIKVLSDKLKEAETRAEFAERSVTKL EKSIDDLEDELYAQKLK--------------------------------- -------------------------------------------------- ------------ykaiseeldhalndmtsi >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1c1gB mol:protein length:284 Tropomyosin mdaikkkmqmlkldkenaldradeaeadkkaaedrskqledelvslqkkl katedeldkysealkdaqeklelaekkatdaeadvaslnrriqlfeeeld raqerlatalqkleeaekaadesergmkviesraqkdeekmeiqeiqlke akhiaedadrkyeevarklviiesdleraeeraelsegkcaeleeeiktv tnnlksleaqaekysqke-------------------------------- -------------------------------------------------- -------------------DKYEEEIKVLSDKLKEAETRAEFAERSVTKL EKSIDDLEDELYAQKLK--------------------------------- -------------------------------------------------- ------------ykaiseeldhalndmtsi >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1c1gC mol:protein length:284 Tropomyosin mdaikkkmqmlkldkenaldradeaeadkkaaedrskqledelvslqkkl katedeldkysealkdaqeklelaekkatdaeadvaslnrriqlfeeeld raqerlatalqkleeaekaadesergmkviesraqkdeekmeiqeiqlke akhiaedadrkyeevarklviiesdleraeeraelsegkcaeleeeiktv tnnlksleaqaekysqke-------------------------------- -------------------------------------------------- -------------------DKYEEEIKVLSDKLKEAETRAEFAERSVTKL EKSIDDLEDELYAQKLK--------------------------------- -------------------------------------------------- ------------ykaiseeldhalndmtsi >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1c1gD mol:protein length:284 Tropomyosin mdaikkkmqmlkldkenaldradeaeadkkaaedrskqledelvslqkkl katedeldkysealkdaqeklelaekkatdaeadvaslnrriqlfeeeld raqerlatalqkleeaekaadesergmkviesraqkdeekmeiqeiqlke akhiaedadrkyeevarklviiesdleraeeraelsegkcaeleeeiktv tnnlksleaqaekysqke-------------------------------- -------------------------------------------------- -------------------DKYEEEIKVLSDKLKEAETRAEFAERSVTKL EKSIDDLEDELYAQKLK--------------------------------- -------------------------------------------------- ------------ykaiseeldhalndmtsi >T0095 dh-----------------------------------VSDS--FL-ETNV PL---LVLIEAAKNGNEKE---VKEY----AQVFREHANKLI-------- -----EVANLACSISNNEEGVKLVR-msasq--LEALCPQ-----VIN-A ALALAAKPQSKLA--QENMDLFKEQWEKQVR------------VLTDAVD DITSIDD--FL----------------------AV--s--ENHILEDV-- -------------NKCVIALQeKDVDGLDRTAGAIRGRAARVIHVVTSEM DNYEPGVYTEKVLEATKLLSNTVMPRFTEQVEA----------------a v---------EALSSDPAQPMDENEFID-----------ASRLVYDG--- ----IRDIRKAVLm------------------- >1b8gA mol:protein length:429 1-Aminocyclopropane-1-Carboxylate Synthase MLSRNATfnshgqdSSYFLGWQEYEKNPYHEVHNTNGIIQMGLAENQLCF DLLESWLAKNPEAAAFKKNGESIFAELALFQDYHGLPAFKKAMVDFMAEI RGNKVTFDPNHLVLTAGATSANETFIFCLADPGEAVLIPTPYYPGFDRDL KWRTGVEIVPIHCTSSNGFQITETALEEAYQEAEKRNLRVKGVLVTNPSN PLGTTMTRNELYLLLSFVEDKGIHLISDEIYSGTAFSSPSFISVMEVLKD RNCDENSEVWQRVHVVYSLSKDLGLPGFRVGAIYSNDDMVVAAATKMSSF GLVSSQTQHLLSAMLSDKKLTKNYIAENHKRLKQRQKKLVSGLQKSGISC LNGNAGLFCWVDMRHLLRSNTFEAEMELWKKIVYEVHLNISPGSSCHCTE PGWFRVCFANLPERTLDLAMQRLKAFV-ge >T0095 DHVSDSFLETNVPLLVLIEAAKNGNEKEVKEYAQVFREHANKLIEVANLA CSISNNEEGVKLVRMSASQLEALCPQVINAALALAAKPQSKLAQENMDLF KEQWEKQVRVLTDAVDDITSIDDFLAVSENHILEDVNKCVIALQEKDVDG LDRTAGAIRGRAARVIHVVTSEMDNYEPGVYTEKVLEATKLLSNTVMPRF TEQVEAAVEALSSDPAQPMDENEFIDASRLVYDGIRDIRKAVLM >1fwfC mol:protein-het length:567 Urease msnisrqayadmfgptvgdkvrladtelwieveddlttygeevkfgggkv irdgmgqgqmlaadcvdlvltnalivdhwgivkadigvkdgrifaigkag npdiqpnvtipigaateviaaegkivtaggidthihwicpqqaeealvsg vttmvgggtgpaagthattctpgpwyisrmlqaadslpvnigllgkgnvs qpdalreqvaagviglxihedwgatpaaidcaltvademdiqvalhsdtl nesgfvedtlaaiggrtihtfhtegaggghapdiitacahpnilpsstnp tlpytlntidehldmlmvdhhldp-------------------------- -------------------------------------------------- -------------------------------------------DIAEDVA FAESRIRRETIAAEDVLHDLGAFSLTSSDSQAMGRVGEVIL--------- -------------------------------------------------- ------------------rtwqvahrmkvqrgalaeetgdndnfrvkryi akytinpalthgiahevgsievgkladlvvwspaffgvkpatvikggmia iapmgdinasiptpqpvhyrpmfgalgsarhhcrltflsqaaaangvaer lnlrsaiavvkgcrtvqkadmvhnslqpnitvdaqtyevrvdgelitsep advlpmaqryflf --simple mime boundary Content-type: text/plain; charset=us-ascii; name='t99-results-960258856.t99pairwise.casp.al' Content-Disposition: attachment; filename="t99-results-960258856.t99pairwise.casp.al" PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1bjw_A V 3 T 16 S 4 V 17 D 5 A 18 S 6 V 19 F 7 N 20 L 8 A 21 E 9 K 22 T 10 D 42 N 11 F 43 V 12 D 44 P 13 T 45 L 14 P 46 L 15 E 47 V 16 H 48 L 17 V 49 I 18 K 50 E 19 E 51 A 20 A 52 A 21 A 53 K 22 R 54 N 23 R 55 G 24 A 56 N 25 L 57 E 26 A 58 K 27 Q 59 E 28 G 60 V 29 K 61 K 30 T 62 E 31 K 63 Y 32 Y 64 A 33 I 70 Q 34 P 71 V 35 E 72 F 36 L 73 R 37 R 74 E 38 E 75 H 39 A 76 A 40 L 77 N 41 A 78 K 42 E 79 L 43 K 80 I 44 F 81 E 45 E 93 V 46 T 94 A 47 I 95 N 48 V 96 L 49 T 97 A 50 V 98 C 51 G 99 S 52 G 100 I 53 K 101 S 54 Q 102 N 55 A 103 N 56 L 104 E 57 F 105 E 58 N 106 G 59 L 107 V 60 F 108 K 61 Q 109 L 62 A 110 V 63 I 111 R 64 L 112 S 66 D 153 A 67 P 154 S 68 E 155 Q 69 R 156 L 70 V 157 E 71 R 158 A 72 R 159 L 73 A 160 C 74 I 161 V 77 T 162 I 78 P 163 N 79 R 164 A 80 T 165 A 81 K 166 L 82 A 167 A 83 L 168 L 84 V 169 A 85 V 170 A 86 N 171 K 87 S 172 P 88 P 173 Q 89 N 174 S 90 N 175 K 91 P 176 L 92 T 177 A 93 G 178 Q 94 A 179 E 95 V 180 N 96 Y 181 M 97 L 186 D 98 R 191 L 99 L 192 F 100 A 193 K 101 V 194 E 102 E 195 K 106 H 196 Q 107 D 197 V 108 F 198 R 109 Y 199 V 110 L 200 L 111 V 201 T 112 S 202 D 113 D 203 A 114 E 204 V 115 I 205 D 117 Y 206 I 118 E 207 T 119 H 208 S 120 L 209 I 121 L 210 D 122 Y 211 D 123 E 212 F 124 G 213 L 125 E 214 A 126 H 215 V 127 F 216 S 128 S 217 E 129 P 218 N 130 G 219 H 131 R 220 I 132 V 221 L 133 A 222 E 134 P 223 D 135 E 224 V 136 H 225 N 137 T 226 K 138 L 227 C 139 T 228 V 140 V 229 I 141 N 230 A 142 G 231 L 143 A 232 Q 144 A 233 K 146 X 234 D 147 A 235 V 148 F 236 D 149 A 237 G 150 M 238 L 151 T 239 D 152 G 240 R 153 W 241 T 154 R 242 A 155 I 243 G 156 G 244 A 157 Y 245 I 158 A 246 R 159 I 253 G 160 K 254 R 161 A 255 A 162 M 256 A 163 A 257 R 164 S 258 V 165 V 259 I 166 S 260 H 167 S 261 V 168 Q 262 V 169 S 263 T 170 T 264 S 171 T 265 E 172 S 266 M 173 P 267 N 175 D 268 Y 176 T 269 E 177 I 270 P 178 A 271 G 179 Q 272 V 180 W 273 Y 181 A 274 T 182 T 275 E 183 L 276 K 184 E 277 V 185 A 278 L 186 L 279 E 187 T 280 A 188 N 281 T 189 S 285 K 190 R 286 L 191 A 287 L 192 F 288 S 193 V 289 N 194 E 290 T 195 M 291 V 196 A 292 M 197 R 293 P 198 E 294 R 199 A 295 F 200 Y 296 T 201 R 297 E 202 R 298 Q 203 R 299 V 204 R 300 E 205 D 301 A 206 L 302 A 207 L 303 V 208 L 304 E 209 E 305 A 210 G 306 L 211 L 307 S 213 L 312 D 214 K 313 P 215 A 314 A 216 V 315 Q 217 R 316 P 218 P 317 M 219 S 318 D 220 G 319 E 221 P 332 N 222 D 333 E 223 E 334 F 224 V 335 I 225 R 336 D 226 A 337 A 227 A 338 S 228 E 339 R 229 R 340 L 230 L 341 V 231 L 342 Y 232 E 343 D 233 A 344 G 234 G 345 I 235 V 346 R 236 G 358 D 237 H 359 I 238 V 360 R 239 R 361 K 240 L 362 A 241 S 363 V 242 Y 364 L 243 A 365 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1sch_A E 58 R 75 G 59 G 76 V 60 F 77 K 61 E 78 L 62 V 79 V 63 I 80 R 64 D 81 M 65 T 82 S 66 I 83 A 67 K 84 S 68 S 85 Q 69 Q 86 L 70 V 87 E 71 E 88 A 72 S 89 L 73 L 90 C 74 C 91 P 75 P 92 Q 76 G 93 V 77 V 94 I 78 V 95 N 79 S 96 A 80 C 97 A 81 A 98 L 82 D 99 A 83 I 100 L 84 L 101 A 85 A 102 A 86 V 103 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1sch_B E 58 R 75 G 59 G 76 V 60 F 77 K 61 E 78 L 62 V 79 V 63 I 80 R 64 D 81 M 65 T 82 S 66 I 83 A 67 K 84 S 68 S 85 Q 69 Q 86 L 70 V 87 E 71 E 88 A 72 S 89 L 73 L 90 C 74 C 91 P 75 P 92 Q 76 G 93 V 77 V 94 I 78 V 95 N 79 S 96 A 80 C 97 A 81 A 98 L 82 D 99 A 83 I 100 L 84 L 101 A 85 A 102 A 86 V 103 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 2tma_A E 102 D 219 Q 103 K 220 W 104 Y 221 E 105 E 222 K 106 E 223 Q 107 E 224 V 108 I 225 R 109 K 226 V 110 V 227 L 111 L 228 T 112 S 229 D 113 D 230 A 114 K 231 V 115 L 232 D 116 K 233 D 117 E 234 I 118 A 235 T 119 E 236 S 120 T 237 I 121 R 238 D 122 A 239 D 123 E 240 F 124 F 241 L 125 A 242 A 126 E 243 V 127 R 244 S 128 S 245 E 129 V 246 N 130 T 247 H 131 K 248 I 132 L 249 L 133 E 250 E 134 K 251 D 135 S 252 V 136 I 253 N 137 D 254 K 138 D 255 C 139 L 256 V 140 E 257 I 141 D 258 A 142 E 259 L 143 L 260 Q 144 Y 261 E 145 A 262 K 146 Q 263 D 147 K 264 V 148 L 265 D 149 K 266 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 2tma_B E 102 D 219 Q 103 K 220 W 104 Y 221 E 105 E 222 K 106 E 223 Q 107 E 224 V 108 I 225 R 109 K 226 V 110 V 227 L 111 L 228 T 112 S 229 D 113 D 230 A 114 K 231 V 115 L 232 D 116 K 233 D 117 E 234 I 118 A 235 T 119 E 236 S 120 T 237 I 121 R 238 D 122 A 239 D 123 E 240 F 124 F 241 L 125 A 242 A 126 E 243 V 127 R 244 S 128 S 245 E 129 V 246 N 130 T 247 H 131 K 248 I 132 L 249 L 133 E 250 E 134 K 251 D 135 S 252 V 136 I 253 N 137 D 254 K 138 D 255 C 139 L 256 V 140 E 257 I 141 D 258 A 142 E 259 L 143 L 260 Q 144 Y 261 E 145 A 262 K 146 Q 263 D 147 K 264 V 148 L 265 D 149 K 266 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1d2f_A T 10 D 39 N 11 F 40 V 12 A 41 P 13 T 42 L 14 A 43 L 15 P 44 V 16 C 45 L 17 I 46 I 18 I 47 E 19 E 48 A 20 A 49 A 21 L 50 K 22 N 51 N 23 Q 52 G 24 R 53 N 25 L 54 E 26 M 55 K 27 H 56 E 28 G 57 V 29 V 58 K 30 F 59 E 31 G 60 Y 32 Y 61 A 33 S 62 Q 34 N 66 V 35 D 67 F 36 F 69 R 37 L 70 E 38 A 71 H 39 A 72 A 40 I 73 N 41 A 74 K 42 H 75 L 43 W 76 I 44 F 77 E 45 T 89 V 46 V 90 A 47 V 91 N 48 Y 92 L 49 G 93 A 50 P 94 C 51 S 95 S 52 V 96 I 53 I 97 S 54 Y 98 N 55 M 99 N 56 V 100 E 57 S 101 E 58 E 102 G 59 L 103 V 60 I 104 K 61 R 105 L 62 Q 106 V 63 W 107 R 64 S 108 L 73 A 120 C 74 Y 121 P 75 D 122 Q 76 A 123 V 77 F 124 I 78 Y 125 N 79 K 126 A 80 A 127 A 81 I 128 L 82 E 129 A 83 G 130 L 84 N 131 A 85 Q 132 A 86 R 133 K 87 T 134 P 88 V 135 Q 89 M 136 S 90 P 137 K 91 V 138 L 92 A 139 A 93 L 140 Q 94 E 141 E 95 K 142 N 96 Q 143 M 97 C 149 D 98 D 150 K 101 M 151 E 102 G 152 Q 103 K 153 W 104 L 154 E 105 E 155 K 106 A 156 Q 107 V 157 V 108 L 158 R 109 K 177 V 110 V 178 L 111 W 179 T 112 T 180 D 113 E 183 A 114 L 184 V 115 S 200 D 116 D 201 D 117 E 202 I 118 I 203 T 119 H 204 S 120 M 205 I 121 D 206 D 122 M 207 D 123 V 208 F 124 W 209 L 125 G 210 A 126 E 211 V 127 Q 212 S 128 P 213 E 129 H 214 N 130 I 215 H 131 P 216 I 132 W 217 L 133 S 218 E 134 N 219 D 135 V 220 V 136 A 221 N 137 W 225 K 138 A 226 C 139 L 227 V 140 L 228 I 141 T 229 A 142 S 230 L 143 G 231 Q 144 S 232 K 146 K 233 D 147 S 234 V 148 F 235 D 149 N 236 G 150 I 237 L 151 P 238 D 152 A 239 R 153 L 240 T 154 T 241 A 155 G 242 G 156 A 243 A 157 Y 244 I 158 G 245 R 159 I 246 G 160 I 247 R 161 E 248 A 162 N 249 A 163 S 250 R 164 S 251 V 165 S 252 I 166 R 253 H 167 D 254 V 168 A 255 V 169 Y 256 T 170 L 257 S 171 S 258 E 172 A 259 M 173 L 260 D 174 K 261 N 175 G 284 Y 176 A 285 E 177 P 286 P 178 W 287 G 179 D 289 V 180 A 290 Y 181 L 291 T 182 R 292 E 183 I 293 K 184 Y 294 V 185 L 295 L 186 K 296 E 187 D 297 A 188 N 298 T 189 L 299 K 190 T 300 L 191 Y 301 L 192 I 302 S 193 A 303 N 194 D 304 T 195 K 305 V 196 M 306 M 197 L 313 P 198 N 314 R 199 W 315 F 200 Q 316 T 201 I 317 E 202 P 318 Q 203 Q 319 E 209 Y 322 A 210 L 323 L 211 A 324 S 212 W 325 S 213 L 326 D 214 D 327 P 215 L 328 A 216 R 329 Q 217 L 331 P 218 N 332 M 219 I 333 D 220 D 334 E 221 D 335 N 222 N 336 E 223 A 337 F 224 L 338 I 225 Q 339 D 226 K 340 A 227 A 341 S 228 L 342 R 229 I 343 L 230 E 344 V 231 I 350 Y 232 M 351 D 233 P 352 G 234 G 353 I 235 I 383 R 236 N 384 D 237 A 385 I 238 I 386 R 239 R 387 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwg_C S 120 D 325 I 121 I 326 D 122 A 327 D 123 E 328 F 124 D 329 L 125 V 330 A 126 A 331 V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1a5l_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I _ E 105 D _ K 106 E _ Q 107 H _ V 108 L _ R 109 D _ V 110 M _ L 111 L _ T 112 M _ D 113 V _ A 114 A _ V 115 H _ D 116 H _ D 117 L _ I 118 D _ T 119 P _ S 120 D _ I 121 I _ D 122 A _ D 123 E _ F 124 D _ L 125 V _ A 126 A _ V 127 F _ S 128 A _ E 129 E _ N 130 S _ H 131 R _ I 132 I _ L 133 R _ E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwa_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I 309 E 105 D 310 K 106 E 311 Q 107 H 312 V 108 L 313 R 109 D 314 V 110 M 315 L 111 L 316 T 112 M 317 D 113 V 318 A 114 A 319 V 115 H 320 D 116 H 321 D 117 L 322 I 118 D 323 T 119 P 324 S 120 D 325 I 121 I 326 D 122 A 327 D 123 E 328 F 124 D 329 L 125 V 330 A 126 A 331 V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwb_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I 309 E 105 D 310 K 106 E 311 Q 107 H 312 V 108 L 313 R 109 D 314 V 110 M 315 L 111 L 316 T 112 M 317 D 113 V 318 A 114 A 319 V 115 H 320 D 116 H 321 D 117 L 322 I 118 D 323 T 119 P 324 S 120 D 325 I 121 I 326 D 122 A 327 D 123 E 328 F 124 D 329 L 125 V 330 A 126 A 331 V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwc_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I 309 E 105 D 310 K 106 E 311 Q 107 H 312 V 108 L 313 R 109 D 314 V 110 M 315 L 111 L 316 T 112 M 317 D 113 V 318 A 114 A 319 V 115 H 320 D 116 H 321 D 117 L 322 I 118 D 323 T 119 P 324 S 120 D 325 I 121 I 326 D 122 A 327 D 123 E 328 F 124 D 329 L 125 V 330 A 126 A 331 V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwd_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I 309 E 105 D 310 K 106 E 311 Q 107 H 312 V 108 L 313 R 109 D 314 V 110 M 315 L 111 L 316 T 112 M 317 D 113 V 318 A 114 A 319 V 115 H 320 D 116 H 321 D 117 L 322 I 118 D 323 T 119 P 324 S 120 D 325 I 121 I 326 D 122 A 327 D 123 E 328 F 124 D 329 L 125 V 330 A 126 A 331 V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwe_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I 309 E 105 D 310 K 106 E 311 Q 107 H 312 V 108 L 313 R 109 D 314 V 110 M 315 L 111 L 316 T 112 M 317 D 113 V _ A 114 A _ V 115 H _ D 116 H _ D 117 L _ I 118 D _ T 119 P _ S 120 D _ I 121 I _ D 122 A _ D 123 E _ F 124 D _ L 125 V _ A 126 A _ V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1krc_C C 74 A 281 P 75 P 282 Q 76 D 283 V 77 I 284 I 78 I 285 N 79 T 286 A 80 A 287 A 81 C 288 L 82 A 289 A 83 H 290 L 84 P 291 A 85 N 292 A 86 I 293 K 87 L 294 P 88 P 295 Q 89 S 296 S 90 S 297 K 91 T 298 Q 94 N 299 E 95 P 300 N 96 T 301 M 97 L 302 D 98 P 303 L 99 Y 304 F 100 T 305 K 101 L 306 E 102 N 307 Q 103 T 308 W 104 I 309 E 105 D 310 K 106 E 311 Q 107 H 312 V 108 L 313 R 109 D 314 V 110 M 315 L 111 L 316 T 112 M 317 D 113 V 318 A 114 C 319 V 115 A 320 D 116 H 321 D 117 L 322 I 118 D 323 T 119 P 324 S 120 D 325 I 121 I 326 D 122 A 327 D 123 E 328 F 124 D 329 L 125 V 330 A 126 A 331 V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1c1g_A E 102 D 219 Q 103 K 220 W 104 Y 221 E 105 E 222 K 106 E 223 Q 107 E 224 V 108 I 225 R 109 K 226 V 110 V 227 L 111 L 228 T 112 S 229 D 113 D 230 A 114 K 231 V 115 L 232 D 116 K 233 D 117 E 234 I 118 A 235 T 119 E 236 S 120 T 237 I 121 R 238 D 122 A 239 D 123 E 240 F 124 F 241 L 125 A 242 A 126 E 243 V 127 R 244 S 128 S 245 E 129 V 246 N 130 T 247 H 131 K 248 I 132 L 249 L 133 E 250 E 134 K 251 D 135 S 252 V 136 I 253 N 137 D 254 K 138 D 255 C 139 L 256 V 140 E 257 I 141 D 258 A 142 E 259 L 143 L 260 Q 144 Y 261 E 145 A 262 K 146 Q 263 D 147 K 264 V 148 L 265 D 149 K 266 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1c1g_B E 102 D 503 Q 103 K 504 W 104 Y 505 E 105 E 506 K 106 E 507 Q 107 E 508 V 108 I 509 R 109 K 510 V 110 V 511 L 111 L 512 T 112 S 513 D 113 D 514 A 114 K 515 V 115 L 516 D 116 K 517 D 117 E 518 I 118 A 519 T 119 E 520 S 120 T 521 I 121 R 522 D 122 A 523 D 123 E 524 F 124 F 525 L 125 A 526 A 126 E 527 V 127 R 528 S 128 S 529 E 129 V 530 N 130 T 531 H 131 K 532 I 132 L 533 L 133 E 534 E 134 K 535 D 135 S 536 V 136 I 537 N 137 D 538 K 138 D 539 C 139 L 540 V 140 E 541 I 141 D 542 A 142 E 543 L 143 L 544 Q 144 Y 545 E 145 A 546 K 146 Q 547 D 147 K 548 V 148 L 549 D 149 K 550 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1c1g_C E 102 D 787 Q 103 K 788 W 104 Y 789 E 105 E 790 K 106 E 791 Q 107 E 792 V 108 I 793 R 109 K 794 V 110 V 795 L 111 L 796 T 112 S 797 D 113 D 798 A 114 K 799 V 115 L 800 D 116 K 801 D 117 E 802 I 118 A 803 T 119 E 804 S 120 T 805 I 121 R 806 D 122 A 807 D 123 E 808 F 124 F 809 L 125 A 810 A 126 E 811 V 127 R 812 S 128 S 813 E 129 V 814 N 130 T 815 H 131 K 816 I 132 L 817 L 133 E 818 E 134 K 819 D 135 S 820 V 136 I 821 N 137 D 822 K 138 D 823 C 139 L 824 V 140 E 825 I 141 D 826 A 142 E 827 L 143 L 828 Q 144 Y 829 E 145 A 830 K 146 Q 831 D 147 K 832 V 148 L 833 D 149 K 834 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1c1g_D E 102 D 1071 Q 103 K 1072 W 104 Y 1073 E 105 E 1074 K 106 E 1075 Q 107 E 1076 V 108 I 1077 R 109 K 1078 V 110 V 1079 L 111 L 1080 T 112 S 1081 D 113 D 1082 A 114 K 1083 V 115 L 1084 D 116 K 1085 D 117 E 1086 I 118 A 1087 T 119 E 1088 S 120 T 1089 I 121 R 1090 D 122 A 1091 D 123 E 1092 F 124 F 1093 L 125 A 1094 A 126 E 1095 V 127 R 1096 S 128 S 1097 E 129 V 1098 N 130 T 1099 H 131 K 1100 I 132 L 1101 L 133 E 1102 E 134 K 1103 D 135 S 1104 V 136 I 1105 N 137 D 1106 K 138 D 1107 C 139 L 1108 V 140 E 1109 I 141 D 1110 A 142 E 1111 L 143 L 1112 Q 144 Y 1113 E 145 A 1114 K 146 Q 1115 D 147 K 1116 V 148 L 1117 D 149 K 1118 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1b8g_A V 3 L 45 S 4 A 46 D 5 E 47 S 6 N 48 F 7 C 51 L 8 F 52 E 9 L 54 T 10 L 55 N 11 E 56 V 12 S 57 P 13 W 58 L 14 L 59 L 15 P 63 V 16 E 64 L 17 A 65 I 18 A 66 E 19 A 67 A 20 F 68 A 21 K 69 K 22 K 70 N 23 N 71 G 24 G 72 N 25 E 73 E 26 S 74 K 27 I 75 E 28 F 76 V 29 A 80 K 30 L 81 E 31 F 82 Y 32 Q 83 A 33 L 88 Q 34 P 89 V 35 A 90 F 36 F 91 R 37 K 92 E 38 K 93 H 39 A 94 A 40 M 95 N 41 V 96 K 42 D 97 L 43 F 98 I 44 M 99 E 45 H 113 V 46 L 114 A 47 V 115 N 48 L 116 L 49 T 117 A 50 A 118 C 51 G 119 S 52 A 120 I 53 T 121 S 54 S 122 N 55 A 123 N 56 N 124 E 57 E 125 E 58 T 126 G 59 F 127 V 60 I 128 K 61 F 129 L 62 C 130 V 63 L 131 R 64 A 132 L 70 E 136 E 71 A 137 A 72 V 138 L 73 L 139 C 74 I 140 P 75 P 141 Q 76 T 142 V 77 F 148 I 78 D 149 N 79 R 150 A 80 L 152 A 81 K 153 L 82 W 154 A 83 R 155 L 84 T 156 A 85 G 157 A 86 V 158 K 87 E 159 P 88 I 160 Q 89 V 161 S 90 P 162 K 91 I 163 L 92 H 164 A 93 C 165 Q 94 S 168 E 95 N 169 N 96 G 170 M 97 F 171 D 98 Q 172 L 99 I 173 F 100 T 174 K 101 E 175 E 102 T 176 Q 103 A 177 W 104 L 178 E 105 E 179 K 106 E 180 Q 107 A 181 V 108 Y 182 R 109 Q 183 V 110 L 196 L 111 V 197 T 112 T 198 D 113 N 199 A 114 P 200 V 115 S 201 D 116 N 202 D 117 P 203 I 118 L 204 T 119 G 205 S 120 T 206 I 121 T 207 D 122 M 208 D 123 T 209 F 124 E 212 L 125 L 213 A 126 T 236 V 127 A 237 E 129 S 242 N 130 F 243 H 131 I 244 I 132 S 245 L 133 V 246 E 134 M 247 D 135 E 248 V 136 V 249 N 137 V 265 K 138 H 266 C 139 V 267 V 140 V 268 I 141 Y 269 A 142 S 270 L 143 L 271 Q 144 S 272 K 146 K 273 D 147 D 274 V 148 L 275 D 149 G 276 G 150 L 277 L 151 P 278 D 152 G 279 R 153 F 280 T 154 R 281 A 155 V 282 G 156 G 283 A 157 A 284 I 158 I 285 R 159 Y 286 G 160 S 287 R 161 N 288 A 162 D 289 A 163 D 290 R 164 M 291 V 165 V 292 I 166 V 293 H 167 A 294 V 168 A 295 V 169 A 296 T 170 T 297 S 171 K 298 E 172 M 299 M 173 S 300 D 174 S 301 N 175 F 302 Y 176 G 303 E 177 L 304 P 178 V 305 G 179 S 306 V 180 S 307 Y 181 Q 308 T 182 T 309 E 183 Q 310 K 184 H 311 V 185 L 312 L 186 L 313 E 187 S 314 A 188 A 315 T 189 M 316 K 190 L 317 L 191 S 318 L 192 D 319 S 193 K 320 N 194 K 321 T 195 L 322 V 196 T 323 M 197 K 324 P 198 N 325 R 199 Y 326 F 200 I 327 T 201 A 328 E 202 E 329 Q 203 N 330 V 204 H 331 E 205 K 332 A 206 R 333 E 209 L 359 A 210 F 360 L 211 C 361 S 212 W 362 S 213 V 363 D 214 D 364 P 215 M 365 A 216 R 366 Q 217 H 367 P 218 L 368 M 219 L 369 D 220 R 370 E 221 S 371 N 222 N 372 E 223 T 373 F 224 F 374 I 225 E 375 D 226 A 376 A 227 V 388 S 228 H 389 R 229 L 390 L 230 N 391 V 231 I 392 Y 232 S 393 D 233 P 394 G 234 G 395 I 235 P 403 R 236 G 404 D 237 W 405 I 238 F 406 R 239 R 407 K 240 V 408 A 241 C 409 V 242 F 410 L 243 A 411 TER END PFRMAT AL TARGET T0095 AUTHOR UCSC SAM-T99 Web Server METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. MODEL 1 PARENT 1fwf_C S 120 D _ I 121 I _ D 122 A _ D 123 E _ F 124 D _ L 125 V _ A 126 A _ V 127 F 332 S 128 A 333 E 129 E 334 N 130 S 335 H 131 R 336 I 132 I 337 L 133 R 338 E 134 R 339 D 135 E 340 V 136 T 341 N 137 I 342 K 138 A 343 C 139 A 344 V 140 E 345 I 141 D 346 A 142 V 347 L 143 L 348 Q 144 H 349 E 145 D 350 K 146 L 351 D 147 G 352 V 148 A 353 D 149 F 354 G 150 S 355 L 151 L 356 D 152 T 357 R 153 S 358 T 154 S 359 A 155 D 360 G 156 S 361 A 157 Q 362 I 158 A 363 R 159 M 364 G 160 G 365 R 161 R 366 A 162 V 367 A 163 G 368 R 164 E 369 V 165 V 370 I 166 I 371 H 167 L 372 TER END --simple mime boundary-- From farmer@cse.ucsc.edu Tue Jun 6 06:39:35 2000 Return-Path: Received: from alpha.cse.ucsc.edu (alpha.cse.ucsc.edu [128.114.48.14]) by cyborg.bioinfo.pl (8.9.3/8.8.7) with SMTP id GAA29493 for Message-Id: <200006060443.VAA26931@alpha.cse.ucsc.edu> Subject: T0095(target 99 secondary structure prediction) MIME-Version: 1.0 Content-type: multipart/mixed; Boundary="simple mime boundary" Apparently-To: T0095.target99@cafasp.bioinfo.pl --simple mime boundary Content-type: text/plain; charset=us-ascii The following is the Target99 secondary structure prediction in the formats you requested. Citation: K. Karplus, C. Barrett, and R. Hughey, Hidden Markov Models for Detecting Remote Protein Homologies, Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. http://www.cse.ucsc.edu/resesarch/compbio/HMM-apps -------------------------------------------------------- For questions or problems, please see the SAM-T99 FAQ at http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html or email us at sam-info@cse.ucsc.edu --simple mime boundary Content-type: text/plain; charset=us-ascii; name='t99-results-960258856.t99secstr.fasta' Content-Disposition: attachment; filename="t99-results-960258856.t99secstr.fasta" >T0095 HHHHHHHHHHLHHHHHHHHHHHLLLHHHHHHHHHHHHHHHHHHHHHHHHHHLLLLLHHHHHHHHHHHHHHHHHHHHHHHHHHHHHLLLLLHHHHHHHHHHHHHHHHHHHHHHHHHHHHLLHHHHHHHHHHHHHHHHHHHHHHHHHLLHHHHHHHHHHHHHHHHHHHHHHHHHHHLLLLLHHHHHHHHHHHHHHHLLLHHHHHHHHHHHHHHHLLLLLLHHHHHHHHHHHHHHHHHHHHHHHHHL --simple mime boundary Content-type: text/plain; charset=us-ascii; name='t99-results-960258856.t99secstr.casp.ss' Content-Disposition: attachment; filename="t99-results-960258856.t99secstr.casp.ss" PFRMAT SS TARGET T0095 AUTHOR UCSC Target99 server METHOD This prediction was derived from the following methods METHOD by averaging the corresponding probabilities: METHOD Method 0: METHOD TARGET T0095 METHOD Using neural net overrep-2500-IDaa13-5-9-7-10-5-9-11-ehl2-seeded2-stride-trained.net METHOD This is a 4-layer network, with METHOD window units METHOD 5 9 METHOD 7 10 METHOD 5 9 METHOD 11 3 (1 EHL2 ) METHOD The input amino acid frequencies were determined from METHOD alignment /projects/compbio/tmp/hmm-target99-alpha-5933/target-align-5933.a2m METHOD with weighted counts, using EntropyWeight(1.4 bits/column, 10) METHOD The weighting was determined by the posterior distribution METHOD after regularizing with /projects/compbio/lib/recode3.20comp. METHOD Counts were regularized to probabilities using METHOD /projects/compbio/lib/recode3.20comp METHOD Total sequence weight for alignment was 12.0079 METHOD METHOD CHAIN 1 METHOD Method 1: METHOD Prediction using SAM HMM nearest-neighbor METHOD sequence: T0095 METHOD model_file: /projects/compbio/tmp/sam-nn-tmp.alpha.14865/model.mod METHOD database_files: /projects/compbio/bin/scripts/hmm-target99-dir/pcc/data/overrep-2260.verify.mixed.seq /projects/compbio/bin/scripts/hmm-target99-dir/pcc/data/overrep-2260.verify.mixed.2d METHOD scoring_mode: local METHOD null_model: reverse METHOD scoring_algorithm: EM METHOD adjust_score: 2 METHOD date: Mon Jun 5 21:38:57 2000 METHOD Method 2: METHOD ###begin 0 METHOD METHOD Protein secondary structure prediction by universal HMM METHOD HMM file: /projects/compbio/bin/scripts/hmm-target99-dir/pcc/scripts/gdac.test.initreest.38state.abb.isites.gd.updated.ghmm-128reest-1-128-105-0.07gd METHOD Alignment file: /projects/compbio/tmp/hmm-target99-alpha-5933/target-align-5933.a2m METHOD METHOD guide seq name: T0095 METHOD ###end 0 MODEL 1 D H 0.477 H H 0.48 V H 0.492 S H 0.498 D H 0.619 S H 0.641 F H 0.644 L H 0.607 E H 0.605 T H 0.58 N C 0.456 V H 0.443 P H 0.551 L H 0.672 L H 0.684 V H 0.682 L H 0.679 I H 0.68 E H 0.68 A H 0.665 A H 0.63 K H 0.568 N C 0.548 G C 0.677 N C 0.592 E H 0.661 K H 0.707 E H 0.716 V H 0.743 K H 0.764 E H 0.776 Y H 0.774 A H 0.774 Q H 0.768 V H 0.757 F H 0.767 R H 0.761 E H 0.764 H H 0.745 A H 0.742 N H 0.749 K H 0.746 L H 0.73 I H 0.713 E H 0.71 V H 0.694 A H 0.695 N H 0.674 L H 0.653 A H 0.615 C H 0.508 S C 0.442 I C 0.545 S C 0.637 N C 0.654 N C 0.685 E H 0.569 E H 0.601 G H 0.604 V H 0.681 K H 0.699 L H 0.686 V H 0.687 R H 0.688 M H 0.675 S H 0.674 A H 0.73 S H 0.73 Q H 0.72 L H 0.746 E H 0.744 A H 0.734 L H 0.697 C H 0.653 P H 0.724 Q H 0.751 V H 0.744 I H 0.736 N H 0.734 A H 0.704 A H 0.662 L H 0.639 A H 0.616 L H 0.581 A H 0.497 A C 0.454 K C 0.746 P C 0.664 Q C 0.595 S C 0.493 K H 0.616 L H 0.635 A H 0.664 Q H 0.701 E H 0.716 N H 0.693 M H 0.75 D H 0.766 L H 0.768 F H 0.771 K H 0.778 E H 0.796 Q H 0.783 W H 0.787 E H 0.784 K H 0.783 Q H 0.768 V H 0.789 R H 0.79 V H 0.79 L H 0.79 T H 0.773 D H 0.775 A H 0.759 V H 0.746 D H 0.719 D H 0.693 I H 0.609 T C 0.516 S C 0.587 I H 0.723 D H 0.743 D H 0.754 F H 0.76 L H 0.745 A H 0.707 V H 0.688 S H 0.627 E H 0.802 N H 0.803 H H 0.786 I H 0.769 L H 0.766 E H 0.753 D H 0.713 V H 0.718 N H 0.7 K H 0.707 C H 0.683 V H 0.697 I H 0.69 A H 0.678 L H 0.653 Q H 0.584 E H 0.567 K C 0.53 D C 0.639 V H 0.532 D H 0.541 G H 0.548 L H 0.512 D H 0.495 R H 0.514 T H 0.497 A H 0.577 G H 0.598 A H 0.621 I H 0.571 R H 0.569 G H 0.614 R H 0.642 A H 0.639 A H 0.66 R H 0.656 V H 0.645 I H 0.641 H H 0.63 V H 0.619 V H 0.616 T H 0.616 S H 0.637 E H 0.616 M H 0.551 D H 0.474 N C 0.508 Y C 0.61 E C 0.631 P C 0.63 G C 0.484 V H 0.495 Y H 0.571 T H 0.643 E H 0.735 K H 0.742 V H 0.767 L H 0.779 E H 0.75 A H 0.744 T H 0.728 K H 0.658 L H 0.641 L H 0.558 S H 0.485 N H 0.447 T C 0.499 V C 0.516 M C 0.521 P H 0.464 R H 0.556 F H 0.575 T H 0.534 E H 0.532 Q H 0.583 V H 0.554 E H 0.573 A H 0.599 A H 0.585 V H 0.637 E H 0.638 A H 0.6 L H 0.542 S H 0.458 S C 0.518 D C 0.717 P C 0.702 A C 0.696 Q C 0.691 P C 0.475 M H 0.573 D H 0.603 E H 0.683 N H 0.681 E H 0.673 F H 0.684 I H 0.682 D H 0.668 A H 0.657 S H 0.59 R H 0.635 L H 0.653 V H 0.635 Y H 0.625 D H 0.629 G H 0.635 I H 0.689 R H 0.687 D H 0.689 I H 0.672 R H 0.657 K H 0.659 A H 0.631 V H 0.605 L H 0.459 M C 0.582 END --simple mime boundary--