# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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 1p90A 145 3.77e-01 c.55.5.2 94377 1t0iA 191 1.31e+00 c.23.5.4 106209 1u5tC 202 1.72e+00 a.4.5.54,a.4.5.54 107688,107689 2d00A 109 1.78e+00 1zxfA 155 1.86e+00 1qr7A 350 1.87e+00 1qr7A c.1.10.4 29191 1eh2 106 1.89e+00 1eh2 a.39.1.6 17339 1gg1A 350 2.03e+00 1qr7A c.1.10.4 29187 1n8fA 350 2.25e+00 c.1.10.4 85397 2ygsA 92 2.76e+00 1cy5A a.77.1.3 18431 1g291 372 2.85e+00 1g291 1t4gA 322 3.92e+00 a.60.4.1,c.37.1.11 106418,106419 1jx4A 352 4.00e+00 d.240.1.1,e.8.1.7 90378,90379 1xb4A 202 4.49e+00 2avpA 70 5.01e+00 1oj7A 408 5.25e+00 e.22.1.2 103971 2a7kA 250 5.94e+00 1lba 146 6.40e+00 1lba d.118.1.1 41062 1y74A 57 6.75e+00 1aroL 151 6.85e+00 1lba d.118.1.1 41063 1na3A 91 6.86e+00 k.38.1.1 85481 1zkrA 153 7.17e+00 1vdrA 162 7.62e+00 1vdrA c.71.1.1 34893 1dkzA 219 7.62e+00 1dkzA a.8.4.1,b.130.1.1 90345,90346 1qgpA 77 7.79e+00 1qbjA a.4.5.19 16158 1mpxA 615 7.94e+00 b.18.1.13,c.69.1.21 85041,85042 1nfiA 301 8.14e+00 1a3qA b.1.18.1,b.2.5.3 21942,22455 1qwtA 255 8.14e+00 b.26.1.3 96501 1dkxA 219 8.15e+00 1dkzA a.8.4.1,b.130.1.1 90339,90340 1om2A 95 8.28e+00 1om2A a.23.4.1 16520 1vlwA 217 8.52e+00 c.1.10.1 108868 1nfiC 301 8.70e+00 b.1.18.1,b.2.5.3 21943,22456 1uptA 171 8.87e+00 c.37.1.8 99767 1cy5A 97 9.02e+00 1cy5A a.77.1.3 18430 1a0eA 443 9.03e+00 1a0cA c.1.15.3 29537 1k8kC 372 9.17e+00 b.69.4.1 68308 1r4aA 165 9.29e+00 c.37.1.8 96986 2ahmA 88 9.79e+00 1vkxA 273 9.80e+00 1a3qA b.1.18.1,b.2.5.3 21941,22454 1m5yA 408 9.95e+00 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 2fpmA 322 1.13e+01 1gjwA 637 1.17e+01 b.71.1.1,c.1.8.1 60582,60583 1ujrA 110 1.27e+01 1iknA 286 1.28e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 1yb0A 159 1.29e+01 1gjuA 637 1.30e+01 b.71.1.1,c.1.8.1 60580,60581 1qj4A 257 1.33e+01 1qj4A c.69.1.20 34796 1k07A 263 1.33e+01 d.157.1.1 77218 1puoA 170 1.35e+01 a.101.1.1,a.101.1.1 95134,95135 2fn0A 437 1.38e+01 1dd5A 185 1.40e+01 1dd5A d.67.3.1 39564 2gdjA 264 1.52e+01 1awpA 92 1.55e+01 1cyo d.120.1.1 41071 1em8A 147 1.56e+01 c.128.1.1 90457 1zpyA 95 1.58e+01 1rybA 212 1.59e+01 c.56.3.1 98098 1lfpA 249 1.61e+01 e.39.1.1 73885 1oxkB 134 1.64e+01 c.23.1.1 93691 1yasA 257 1.64e+01 1qj4A c.69.1.20 34801 1eyuA 157 1.70e+01 3pviA c.52.1.6 33304 3cla 213 1.86e+01 3cla c.43.1.1 32610 1d3bB 91 1.87e+01 1d3bB b.38.1.1 24804 1fa3A 96 1.88e+01 1molA d.17.1.1 37996 2a6tA 271 1.94e+01 1dfuP 94 1.94e+01 1dfuP b.53.1.1 26936 1f75A 249 1.98e+01 1f75A c.101.1.1 59662 1z57A 339 1.99e+01 1jhgA 101 2.00e+01 1jhgA a.4.12.1 19009 1fchA 368 2.02e+01 1fchA a.118.8.1 19212 1wt4A 73 2.09e+01 1y0uA 96 2.20e+01 2eu9A 355 2.24e+01 2fnbA 95 2.28e+01 2fnbA b.1.2.1 21979 2bt2A 161 2.33e+01 1qc7A 101 2.35e+01 1qc7A a.118.14.1 18456 1pg4A 652 2.36e+01 e.23.1.1 88067 1wa3A 205 2.48e+01 2fhi 147 2.51e+01 1fit d.13.1.1 37505 1iyxA 432 2.55e+01 c.1.11.1,d.54.1.1 83815,83816 1tueA 212 2.55e+01 c.37.1.20 107323 1uptC 170 2.65e+01 c.37.1.8 99769 1v72A 356 2.72e+01 1lj0A 92 2.72e+01 d.120.1.1 78019 1w5rA 278 2.79e+01 1eueA 86 2.81e+01 1cyo d.120.1.1 59504 2cu1A 103 2.81e+01 2aioA 269 2.82e+01 1ns5A 155 2.83e+01 c.116.1.3 80705 1im4A 221 2.84e+01 e.8.1.7 62581 1dk8A 147 2.92e+01 1agrE a.91.1.1 18548 1ad4A 266 2.94e+01 1aj2 c.1.21.1 29670 1ofuX 119 2.97e+01 c.37.1.22 86976 1ckv 141 2.98e+01 1ckv d.137.1.1 41452 1cwwA 102 3.03e+01 1cy5A a.77.1.3 18434 3pviA 157 3.04e+01 3pviA c.52.1.6 33300 4cpv 109 3.06e+01 1a75A a.39.1.4 17198 1trrA 107 3.11e+01 1jhgA a.4.12.1 19017 1q8yA 373 3.11e+01 d.144.1.7 96234 1pal 108 3.14e+01 1a75A a.39.1.4 17209 1ckaA 57 3.14e+01 1ckaA b.34.2.1 24459 1bjt 793 3.15e+01 1bjt e.11.1.1 43249 1vqoR 155 3.16e+01 1howA 373 3.26e+01 1hcl d.144.1.7 41679 1hrhA 136 3.27e+01 1rthA c.55.3.1 33577 1f53A 84 3.28e+01 1f53A b.11.1.4 23632 1a7j 290 3.29e+01 1a7j c.37.1.6 31952 1o17A 345 3.39e+01 a.46.2.1,c.27.1.1 80765,80766 1w66A 232 3.39e+01 1aueA 100 3.40e+01 1nsgB a.24.7.1 16615 2bodX 286 3.42e+01 1k2eA 156 3.46e+01 d.113.1.1 72010 2fcjA 119 3.50e+01 2cohA 202 3.52e+01 1s72R 155 3.52e+01 d.55.1.1 105337 1lw7A 365 3.54e+01 c.26.1.3,c.37.1.1 74295,74296 1xppA 115 3.58e+01 1xd7A 145 3.59e+01 a.4.5.55 109566 1wqgA 185 3.63e+01 2av9A 147 3.67e+01 1v54E 109 3.71e+01 a.118.11.1 100326 1tig 94 3.81e+01 1tig d.68.1.1 39566 1k4mA 213 3.83e+01 c.26.1.3 77258 1jj2Q 154 3.90e+01 1ffkO d.55.1.1 63102 1gz6A 319 3.94e+01 c.2.1.2 76410 2pviA 157 3.95e+01 3pviA c.52.1.6 33302 2pvbA 107 3.95e+01 1a75A a.39.1.4 17205 256bA 106 3.97e+01 256bA a.24.3.1 16539 1yaxA 153 3.98e+01 1wad 112 3.99e+01 3cyr a.138.1.1 19658 1gx3A 284 3.99e+01 d.3.1.5 70678 1z9zA 60 4.03e+01 1jj2I 145 4.03e+01 1ffkG c.21.1.1 63094 1jrkA 156 4.04e+01 d.113.1.1 71827 1kjkA 64 4.07e+01 d.10.1.4 72613 2wrpR 107 4.09e+01 1jhgA a.4.12.1 19010 2gi3A 476 4.16e+01 1jxmA 301 4.17e+01 b.34.2.1,c.37.1.1 67420,67421 1dvbA 191 4.19e+01 1ryt a.25.1.1,g.41.5.1 16645,45244 1lf7A 182 4.21e+01 b.60.1.1 73878 1irsA 112 4.22e+01 1qqgA b.55.1.2 26991 1cdp 109 4.30e+01 1a75A a.39.1.4 17197 1k3fA 253 4.33e+01 c.56.2.1 68105 2b33A 140 4.33e+01 1r4xA 275 4.34e+01 b.1.10.3,d.105.1.2 97054,97055 1b71A 191 4.40e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1d5cA 162 4.40e+01 1ctqA c.37.1.8 32021 1smlA 269 4.44e+01 1smlA d.157.1.1 42053 2occJ 59 4.47e+01 2occJ f.23.4.1 43524 1fapB 95 4.48e+01 1nsgB a.24.7.1 16618 1ukz 203 4.51e+01 1zin c.37.1.1 31840 1orjA 130 4.52e+01 a.24.19.1 93456 1yw5A 177 4.56e+01 1ptf 88 4.57e+01 1ptf d.94.1.1 40549 1rxyA 253 4.61e+01 c.56.2.1 98065 1b07A 59 4.66e+01 1ckaA b.34.2.1 24461 1lox 662 4.68e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1iw2A 182 4.78e+01 b.60.1.1 71468 1aa7A 158 4.80e+01 1aa7A a.95.1.1 18741 1sphA 88 4.82e+01 1ptf d.94.1.1 40544 1b8rA 108 4.87e+01 1a75A a.39.1.4 17201 2c3gA 98 4.91e+01 1m5q1 130 5.00e+01 2f7fA 494 5.01e+01 1egxA 115 5.04e+01 1evhA b.55.1.4 27000 2a1iA 146 5.08e+01 1ljrA 244 5.11e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 2gtrA 261 5.13e+01 1k3lA 221 5.15e+01 a.45.1.1,c.47.1.5 77229,77230 1k3yA 221 5.24e+01 a.45.1.1,c.47.1.5 77245,77246 1i0cA 60 5.24e+01 1aojA b.34.2.1 61485 2ax8A 256 5.29e+01 1pzdA 322 5.32e+01 b.1.10.3,d.105.1.2 95413,95414 1lx7A 253 5.47e+01 c.56.2.1 74329 1e3mA 800 5.50e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1c75A 71 5.51e+01 451c a.3.1.1 15796 1a8y 367 5.54e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1gc5A 467 5.56e+01 1gc5A c.72.1.3 60429 1np3A 338 5.60e+01 a.100.1.2,c.2.1.6 85946,85947 2ax9A 256 5.71e+01 1ia8A 289 5.77e+01 1ia8A d.144.1.7 62112 1xa0A 328 5.77e+01 1kkhA 317 5.82e+01 d.14.1.5,d.58.26.3 72645,72646 1dc1A 323 5.82e+01 1dc1A c.52.1.11 33321 1txoA 237 5.84e+01 2atzA 180 5.85e+01 1e6iA 121 5.87e+01 1b91A a.29.2.1 16969 1qjtA 99 5.96e+01 1eh2 a.39.1.6 17335 1z3iX 644 5.96e+01 1qauA 112 6.10e+01 1qauA b.36.1.1 24779 1n8vA 112 6.10e+01 a.118.21.1 85457 1jegA 83 6.13e+01 b.34.2.1 66610 1rcsA 105 6.22e+01 1jhgA a.4.12.1 19025 1gseA 221 6.25e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 1y1xA 191 6.26e+01 2cyeA 133 6.34e+01 1w6vA 141 6.36e+01 1k26A 156 6.37e+01 d.113.1.1 72003 1dfoA 417 6.41e+01 1bj4A c.67.1.4 34480 1qo3C 137 6.48e+01 1qo3C d.169.1.1 42350 1j3aA 142 6.48e+01 c.21.1.1 77070 1fit 147 6.50e+01 1fit d.13.1.1 37499 2occE 109 6.50e+01 2occE a.118.11.1 19224 2br9A 234 6.53e+01 1b5m 84 6.60e+01 1cyo d.120.1.1 41073 1ryt 190 6.61e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1tuaA 191 6.61e+01 d.51.1.1,d.51.1.1 107321,107322 1w2fA 276 6.61e+01 d.143.1.3 109125 1kjwA 295 6.71e+01 b.34.2.1,c.37.1.1 68643,68644 1nd6A 354 6.72e+01 c.60.1.2 80407 5pal 109 6.73e+01 1a75A a.39.1.4 17215 1ux8A 132 6.73e+01 1lkoA 191 6.83e+01 a.25.1.1,g.41.5.1 78063,78064 1cskA 71 6.89e+01 1ckaA b.34.2.1 24513 1x6oA 174 6.89e+01 b.34.5.2,b.40.4.5 109493,109494 1f8aB 167 6.92e+01 1pinA b.72.1.1,d.26.1.1 27803,38432 1h6oA 204 7.04e+01 a.146.1.1 60689 2oneA 436 7.06e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1p7gA 222 7.08e+01 a.2.11.1,d.44.1.1 94223,94224 2g84A 197 7.10e+01 1b8xA 280 7.10e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 1zgyA 272 7.11e+01 1eypA 222 7.12e+01 1eypA d.36.1.1 38536 1qbjA 81 7.18e+01 1qbjA a.4.5.19 16155 1huuA 90 7.21e+01 1huuA a.55.1.1 17897 1z5bA 469 7.33e+01 1fj2A 232 7.35e+01 1auoA c.69.1.14 34720 1iv0A 98 7.40e+01 c.55.3.8 90706 1aojA 60 7.50e+01 1aojA b.34.2.1 24555 1cviA 342 7.51e+01 1cviA c.60.1.2 33989 2a10A 125 7.53e+01 1wz8A 264 7.58e+01 1v0wA 506 7.61e+01 d.136.1.2,d.136.1.2 108220,108221 1jm4B 118 7.68e+01 a.29.2.1 71746 2c0cA 362 7.84e+01 1ytqA 204 8.03e+01 1lkvX 232 8.06e+01 a.118.14.1 73980 1f0iA 504 8.07e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1b91A 118 8.11e+01 1b91A 1e8yA 966 8.22e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1v54J 59 8.25e+01 f.23.4.1 100331 1zjcA 418 8.28e+01 1s72B 338 8.28e+01 b.43.3.2 105320 1pvuA 154 8.31e+01 3pviA c.52.1.6 33306 1xp8A 366 8.32e+01 1vl4A 447 8.34e+01 d.283.1.1 108718 1ea3A 164 8.38e+01 1aa7A a.95.1.1 59398 1mdwA 328 8.39e+01 d.3.1.3 84934 3adk 195 8.42e+01 1zin c.37.1.1 31885 4enl 436 8.47e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1qn0A 112 8.49e+01 3cyr a.138.1.1 19659 1qfrA 89 8.58e+01 1ptf d.94.1.1 40552 1p57A 114 8.60e+01 d.170.1.2 94125 1zeeA 403 8.65e+01 2ctc 307 8.65e+01 1aye c.56.5.1 33802 1ge9A 184 8.68e+01 1dd5A d.67.3.1 60463 1clqA 903 8.70e+01 1clqA c.55.3.5,e.8.1.1 33717,43006 1molA 94 8.71e+01 1molA d.17.1.1 37988 1i07A 60 8.73e+01 1aojA b.34.2.1 61477 1eyqA 222 8.74e+01 1eypA d.36.1.1 38534 1evhA 112 8.78e+01 1evhA b.55.1.4 26997 1ndh 272 8.81e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1wb9A 800 8.88e+01 1yvoA 172 8.90e+01