# List of top-scoring protein chains for T0360.t06-w0.5 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 1dvoA 152 2.62e-12 1dvoA a.136.1.1 19623 1yr2A 741 1.33e+00 1o9gA 250 1.74e+00 c.66.1.29 86692 1o9hA 250 1.81e+00 c.66.1.29 86693 1p6bA 336 3.08e+00 c.1.9.3 94163 2gx8A 397 3.13e+00 1rqgA 722 8.78e+00 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 2pviA 157 8.78e+00 3pviA c.52.1.6 33302 1ni0A 159 9.37e+00 c.52.1.6 80522 1eyuA 157 1.06e+01 3pviA c.52.1.6 33304 1qydA 313 1.07e+01 c.2.1.2 96583 1z6cA 87 1.07e+01 1qdlA 422 1.10e+01 1qdlA d.161.1.1 42088 1k0zA 156 1.13e+01 c.52.1.6 84273 1qleA 538 1.39e+01 2occA f.24.1.1 43620 1wikA 109 1.39e+01 1ar1A 558 1.39e+01 2occA f.24.1.1 43618 2b5nA 323 1.55e+01 3gwxA 271 1.75e+01 2prgA a.123.1.1 19325 2gwxA 267 1.75e+01 2prgA a.123.1.1 19323 1y0sA 272 1.75e+01 2awhA 268 1.75e+01 2b50A 272 1.77e+01 1la6B 146 1.79e+01 a.1.1.2 73783 1kz9A 159 1.83e+01 c.16.1.1 73339 1kyyA 159 1.86e+01 c.16.1.1 73307 1kz1A 159 1.86e+01 c.16.1.1 73318 2a59A 159 1.87e+01 3pviA 157 1.94e+01 3pviA c.52.1.6 33300 1s4bP 674 2.02e+01 d.92.1.5 105252 1kz6A 159 2.08e+01 c.16.1.1 73328 1kz4A 159 2.11e+01 c.16.1.1 73323 1egjA 101 2.60e+01 1c8pA b.1.2.1 22039 1c8pA 102 2.62e+01 1c8pA b.1.2.1 22040 1v4xB 146 2.81e+01 a.1.1.2 108364 2b5lA 1140 2.88e+01 1z5hA 780 3.16e+01 1agjA 242 3.18e+01 1agjA b.47.1.1 25827 2ch9A 131 3.27e+01 1dueA 242 3.43e+01 b.47.1.1 76140 1fukA 165 3.56e+01 1fukA c.37.1.19 32409 1ti5A 46 3.90e+01 2d2yA 145 3.93e+01 1wfmA 138 4.02e+01 1svfB 38 4.15e+01 1svfB h.3.2.1 45764 1t9kA 347 4.17e+01 c.124.1.5 106721 1v7cA 351 4.33e+01 c.79.1.1 100446 1fuuA 394 4.65e+01 1qvaA c.37.1.19 32412 1an7A 136 4.71e+01 1seiA d.140.1.1 41465 2cxxA 190 4.75e+01 1rwhA 757 4.98e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1rw9A 757 5.00e+01 a.102.3.2,b.24.1.1,b.30.5.2 97964,97965,97966 1v5iB 76 5.13e+01 1fjgH 138 5.17e+01 1seiA d.140.1.1 41468 1z6rA 406 5.26e+01 1elvA 333 5.42e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 2b9mY 365 5.60e+01 1f53A 84 5.66e+01 1f53A b.11.1.4 23632 1b5zA 130 5.67e+01 3lzt d.2.1.2 36567 1m57A 566 5.79e+01 f.24.1.1 74481 1spiA 358 5.79e+01 1frpA e.7.1.1 42939 1m56A 566 5.80e+01 f.24.1.1 74471 1lyvA 306 5.82e+01 c.45.1.2 74348 1xxpA 306 5.82e+01 1pa9A 284 5.83e+01 c.45.1.2 94411 1qz0A 306 5.84e+01 c.45.1.2 96607 1yptA 305 5.84e+01 1ytw c.45.1.2 32686 1xxvA 306 5.85e+01 1yts 278 5.97e+01 1ytw c.45.1.2 32690 1wh4A 127 6.04e+01 2bycA 137 6.21e+01 1eg3A 261 6.21e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1x9uA 116 6.22e+01 2czyA 77 6.26e+01 1chuA 540 6.44e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1miwA 404 6.48e+01 a.173.1.1,d.218.1.4 79162,79163 1nmoA 247 6.67e+01 c.135.1.1 91980 2g9iA 249 6.68e+01 1i51E 117 6.76e+01 8tlnE 316 6.86e+01 1hyt d.92.1.2 59075 1kjoA 316 6.88e+01 d.92.1.2 77419 1ky8A 501 6.92e+01 c.82.1.1 77628 1njrA 284 6.97e+01 c.50.1.2 103858 1llfA 534 7.03e+01 c.69.1.17 78094 1cleA 534 7.05e+01 1thg c.69.1.17 34771 1dbzA 357 7.38e+01 1frpA e.7.1.1 42951 1uxtA 501 7.46e+01 c.82.1.1 108125 2fd6L 214 7.47e+01 1uxvA 501 7.48e+01 c.82.1.1 108127 2acu 315 7.49e+01 1frb c.1.7.1 28676 1kmcC 119 7.60e+01 1zzmA 259 7.69e+01 1kkqA 269 7.72e+01 a.123.1.1 68679 2a9iA 113 7.74e+01 1abn 315 7.80e+01 1frb c.1.7.1 28683 1dcuA 357 7.85e+01 1frpA e.7.1.1 42943 1xgdA 315 7.86e+01 1az1 315 7.90e+01 1frb c.1.7.1 28677 1k7lA 288 7.90e+01 a.123.1.1 68268 1ads 315 7.92e+01 1frb c.1.7.1 28671 1odkA 235 7.92e+01 c.56.2.1 86863 1i7gA 287 7.97e+01 a.123.1.1 71121 1us0A 316 7.98e+01 c.1.7.1 99850 1el3A 316 8.03e+01 1frb c.1.7.1 28672 1gvkB 240 8.05e+01 b.47.1.2 70610 1qnjA 240 8.09e+01 5ptp b.47.1.2 26238 1esb 241 8.09e+01 5ptp b.47.1.2 26276 1z3nA 319 8.14e+01 2a97A 439 8.17e+01 1knrA 540 8.21e+01 a.7.3.1,c.3.1.4,d.168.1.1 72788,72789,72790 2agtA 319 8.23e+01 1thg 544 8.26e+01 1thg c.69.1.17 34763 1yl3F 246 8.29e+01 2a8aA 439 8.31e+01 1wkjA 137 8.32e+01 1p91A 269 8.34e+01 c.66.1.33 94378 1jgjA 217 8.44e+01 1c3wA f.13.1.1 62952 1vqoC 246 8.45e+01 1e6jL 210 8.46e+01 32c2A b.1.1.1,b.1.1.2 20496,21454 1sezA 504 8.47e+01 c.3.1.2,d.16.1.5 98822,98823 2bqh 130 8.50e+01 3lzt d.2.1.2 36531 1e6oL 212 8.53e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1c9qA 117 8.72e+01 1c9qA g.52.1.1 45377 2bqo 130 8.74e+01 3lzt d.2.1.2 36538 1i3oE 121 8.83e+01 1c9qA g.52.1.1 61605