; SAM: prettyalign v3.5 (May 1, 2004) compiled 07/27/04_17:12:31 ; (c) 1992-2001 Regents of the University of California, Santa Cruz ; ; Sequence Alignment and Modeling Software System ; http://www.cse.ucsc.edu/research/compbio/sam.html ; ; ----------------- Citations (SAM, SAM-T2K, HMMs) -------------------- ; R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: ; Extension and analysis of the basic method, CABIOS 12:95-107, 1996. ; K. Karplus, et al., What is the value added by human intervention in protein ; structure prediction, Proteins: Stucture, Function, Genetics 45(S5):86--91, 2001. ; A. Krogh et al., Hidden Markov models in computational biology: ; Applications to protein modeling, JMB 235:1501-1531, Feb 1994. ; --------------------------------------------------------------------- 10 20 30 | | | T0247 MAQQTPLYEQHTLCGARMVDFHGWMMPLHYGS................................ 1pj5A -MASTP--------------------------riviigagivgtnladelvtrgwnnitvldqg T0247 ................................................................ 1pj5A plnmpggstshapglvfqtnpsktmasfakytvekllsltedgvscfnqvgglevattetrlad T0247 ................................................................ 1pj5A lkrklgyaaawgiegrllspaecqelyplldgenilgglhvpsdglasaaravqllikrtesag T0247 ................................................................ 1pj5A vtyrgsttvtgieqsggrvtgvqtadgvipadivvscagfwgakigamigmavpllplahqyvk T0247 ................................................................ 1pj5A ttpvpaqqgrndqpngarlpilrhqdqdlyyrehgdrygigsyahrpmpvdvdtlgayapetvs T0247 ................................................................ 1pj5A ehhmpsrldftledflpaweatkqllpaladseiedgfngifsftpdggpllgeskeldgfyva T0247 ................................................................ 1pj5A eavwvthsagvakamaellttgrsetdlgecditrfedvqltpeyvsetsqqnfveiydvlhpl T0247 ................................................................ 1pj5A qprlsprnlrvspfharhkelgaffleaggwerpywfeanaallkempaewlppardawsgmfs 40 50 60 70 80 90 | | | | | | T0247 ...QIDEHHAVRTDAGMFDVSHMTIVDLRGSRTREFLRYLLANDVAKLTKSGKALYSGMLNASG 1pj5A spiAAAEAWKTRTAVAMYDMTPLKRLEVSGPGALKLLQELTTADLAK--KPGAVTYTLLLDHAG 100 110 120 130 140 150 | | | | | | T0247 GVIDDLIVYYFTEDFFRLVVNSATREKDLSWITQHAE.....PFGIEI.TVRDDLSMIAVQGPN 1pj5A GVRSDITVARLSEDTFQLGANGNIDTAYFERAARHQTqsgsaTDWVQVrDTTGGTCCIGLWGPL 160 170 180 190 200 210 | | | | | | T0247 AQAKAATLFNDAQRQ..AVEGMKPFFGVQAGDLFIATTGYTGEAGYEIALPNEKAADFWRALVE 1pj5A ARDLVSKVSDDDFTNdgLKYFRAKNVVIGGIPVTAMRLSYVGELGWELYTSADNGQRLWDALWQ 220 230 240 250 260 270 | | | | | | T0247 AG....VKPCGLGARDTLRLEAGMNLYGQEMDETISPLAANMGWTIAWEPADRDFIGREALEVQ 1pj5A AGqpfgVIAAGRAAFSSLRLEKGYRSWGTDMTTEHDPFEAGLGFAVKMAK--ESFIGKGALEGR 280 290 300 310 320 330 | | | | | | T0247 REHGT.EKLVGLVMTE.KGVLRNELPVRFTDAQGNQHEGIITSGTFSPTLGYSIALARVPEGI. 1pj5A TEEASaRRLRCLTIDDgRSIVLGKEPVF----YKEQAVGYVTSAAYGYTVAKPIAYSYLPGTVs 340 350 360 | | | T0247 .GETAIVQIRNREMPVKVTKPVFVRNGKA..VA 1pj5A vGDSVDIEYFGRRITATVTEDPLYDPKMTrlRG