# List of top-scoring protein chains for t04-100-30-near-backbone-11 hidden Markov model. # HMM and HMM E-value scores computed by SAM (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-T99, 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, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1nb8A 353 4.67e-59 d.3.1.9 80385 1ogwA 76 3.71e-05 d.15.1.1 87001 1ubi 76 3.84e-05 1ubi d.15.1.1 37584 1bt0A 76 2.46e-04 1ubi d.15.1.1 37607 1nddA 76 5.93e-03 1ubi d.15.1.1 37599 1lm8B 118 4.00e-02 d.15.1.1 74033 1hkfA 122 1.12e-01 b.1.1.1 83553 1vcbA 118 1.76e-01 1vcbA d.15.1.1 37603 1qmyA 167 2.47e-01 1qmyA d.3.1.2 37094 1scfA 273 5.17e-01 1exzA a.26.1.2 16873 1rdg 53 6.16e-01 1rb9 g.41.5.1 45221 1qxfA 66 1.21e+00 g.41.8.4 -12822 1euvB 86 1.26e+00 1a5r d.15.1.1 37598 1py5A 326 1.26e+00 1bq9A 54 1.45e+00 1rb9 g.41.5.1 45238 1ip9A 85 1.47e+00 1ip9A d.15.2.2 62638 1urnA 97 1.85e+00 1urnA d.58.7.1 39153 1brfA 53 1.88e+00 1rb9 g.41.5.1 45236 3pviA 157 2.27e+00 3pviA c.52.1.6 33300 6rxn 46 2.44e+00 1rb9 g.41.5.1 45222 1l1oC 181 2.70e+00 b.40.4.3 73480 1f0xA 571 2.99e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 2pviA 157 3.28e+00 3pviA c.52.1.6 33302 1foeA 377 3.64e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1v2yA 105 4.01e+00 d.15.1.1 -9148 1l2hA 153 4.73e+00 b.42.1.2 77655 1t0yA 122 5.06e+00 d.15.1.1 -9151 1pwbA 177 5.18e+00 d.169.1.1 -11641 h.1.1.1 -12890 1h8eG 272 5.78e+00 1e79G c.49.2.1 60756 1neeA 138 6.27e+00 unknown_sccs -9002 g.59.1.1 -12824 1p35A 299 6.41e+00 1p35A b.28.1.1 23925 1l1sA 113 7.42e+00 c.114.1.1 73484 1wer 334 8.60e+00 1wer a.116.1.2 19108 1omiA 248 8.62e+00 a.4.5.4 87079 b.82.3.3 87080 1nu4A 97 8.73e+00 d.58.7.1 80731 1a1iA 90 9.51e+00 1aayA g.37.1.1 44998 g.37.1.1 44999 g.37.1.1 45000 1qopA 268 9.82e+00 2tysA c.1.2.4 28570 1k6kA 143 1.01e+01 a.174.1.1 77274 1gw5A 621 1.02e+01 a.118.1.10 70629 1g55A 343 1.11e+01 1g55A c.66.1.26 34247 1cmiA 85 1.17e+01 1cmiA d.39.1.1 38551 1lb6A 160 1.22e+01 b.8.1.1 73798 1h4lD 147 1.33e+01 a.74.1.1 70873 1itbB 315 1.37e+01 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1dabA 539 1.42e+01 1dabA b.80.1.7 28049 1w2wA 211 1.44e+01 1hxrA 115 1.47e+01 1fwqA b.88.1.1 28392 1sesA 421 1.54e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1f9aA 168 1.60e+01 1f9aA c.26.1.3 31602 1ctf 74 1.67e+01 1ctf d.45.1.1 38759 1p4xA 250 1.70e+01 a.4.5.28 87784 a.4.5.28 87785 2i1b 153 1.80e+01 2i1b b.42.1.2 25538 1rb9 53 1.80e+01 1rb9 g.41.5.1 45214 1e79G 272 1.97e+01 1e79G c.49.2.1 33158 1f2rI 100 2.05e+01 1c9fA d.15.2.1 37641 2tysA 268 2.06e+01 2tysA c.1.2.4 28572 1cuk 203 2.17e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1kkcA 221 2.32e+01 a.2.11.1 68660 d.44.1.1 68661 1jfmA 174 2.56e+01 d.19.1.1 66640 1ldjA 760 2.64e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1r13A 148 2.66e+01 d.169.1.1 -11646 h.1.1.1 -12895 3sdhA 146 2.75e+01 3sdhA a.1.1.2 14984 1r9wA 145 2.76e+01 d.89.1.2 -10511 1extA 162 2.76e+01 1extA g.24.1.1 44900 g.24.1.1 44901 g.24.1.1 44902 1jnrB 150 2.79e+01 d.58.1.5 66969 1fnnA 389 2.80e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1f80D 81 2.92e+01 1acp a.28.1.1 59686 1oiaA 95 3.09e+01 d.58.7.1 87051 1aayA 90 3.11e+01 1aayA g.37.1.1 45001 g.37.1.1 45002 g.37.1.1 45003 1g2fC 90 3.14e+01 k.12.1.1 60222 1jksA 294 3.24e+01 d.144.1.7 71710 1grj 158 3.28e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1zaaC 87 3.45e+01 1aayA g.37.1.1 45013 g.37.1.1 45014 g.37.1.1 45015 1fu9A 36 3.51e+01 1fu9A g.37.1.2 45074 1m7vA 363 3.65e+01 d.174.1.1 78748 1ikpA 613 3.77e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1r8sE 203 3.85e+01 a.118.3.1 -1579 1avmA 201 3.87e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1nzjA 298 3.88e+01 c.26.1.1 -6600