# List of top-scoring protein chains for t04-100-30-bys 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 1mkiA 330 1.10e-42 e.3.1.2 84994 1i2sA 282 8.69e-03 e.3.1.1 71104 4blmA 265 2.96e-02 1btl e.3.1.1 42721 1bza 262 5.01e-02 1btl e.3.1.1 42701 1iysA 262 7.69e-02 e.3.1.1 -11760 1klxA 138 8.50e-02 a.118.18.1 77440 1ghpA 258 9.39e-02 1btl e.3.1.1 60520 1k38A 254 9.55e-02 e.3.1.1 84303 1qq5A 253 1.26e-01 1qq5A c.108.1.1 43327 1qq7A 253 1.26e-01 1qq5A c.108.1.1 43329 1fw9A 164 1.91e-01 1fw9A d.190.1.1 60059 1hzoA 271 2.19e-01 e.3.1.1 71092 1ei5A 520 2.52e-01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1np3A 338 3.78e-01 a.100.1.2 85946 c.2.1.6 85947 1j1jA 240 4.60e-01 a.118.16.1 -1637 1n9bA 265 4.72e-01 e.3.1.1 85463 1oshA 232 7.00e-01 a.123.1.1 -1697 1bsg 266 7.74e-01 1btl e.3.1.1 42729 1e25A 282 8.34e-01 1e25A e.3.1.1 42731 1g6aA 271 8.41e-01 1btl e.3.1.1 42704 1uw4B 248 8.62e-01 unknown_sccs -1560 1odoA 408 9.96e-01 a.104.1.1 -1463 1auiB 169 1.08e+00 1auiB a.39.1.5 17325 1uch 230 1.12e+00 1uch d.3.1.6 37129 1jfbA 404 1.21e+00 a.104.1.1 66624 1regX 122 1.21e+00 1regX d.58.27.1 39406 1top 162 1.45e+00 1ncx a.39.1.5 17223 1i7wB 151 1.51e+00 1i7wB j.71.1.1 61910 1ermA 263 1.65e+00 1btl e.3.1.1 42690 1ouvA 273 1.65e+00 a.118.18.1 -1586 1kktA 511 1.71e+00 a.102.2.1 68687 1gcqC 70 1.72e+00 1gcpA b.34.2.1 60436 1omhA 293 1.80e+00 unknown_sccs -10527 1f24A 402 1.87e+00 1rom a.104.1.1 18953 1mwxA 646 1.88e+00 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1qmeA 702 2.06e+00 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 2sqcA 631 2.08e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1k8kD 300 2.11e+00 d.198.2.1 68309 d.198.2.1 68310 1lmeA 176 2.34e+00 d.167.1.1 84629 1l1zA 274 2.38e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1b8dA 164 2.46e+00 1cpcA a.1.1.3 15665 1m40A 263 3.02e+00 e.3.1.1 74437 1i9sA 210 3.06e+00 1i9sA c.45.1.1 62099 1mtyD 512 3.11e+00 1mhyD a.25.1.2 16742 1pd21 199 3.71e+00 1pd21 1dq3A 454 3.83e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1qpaA 345 4.13e+00 1arv a.93.1.1 18585 1abv 134 4.17e+00 1abv a.70.1.1 18317 1btl 263 4.20e+00 1btl e.3.1.1 42691 1ad4A 266 4.22e+00 1aj2 c.1.21.1 29670 1fs1B 141 4.54e+00 1vcbB a.157.1.1 19252 d.42.1.1 38664 1ezvF 125 4.61e+00 1be3F f.27.1.1 59550 1dxrL 273 4.65e+00 6prcL f.26.1.1 43431 1lmzA 187 4.67e+00 a.96.1.4 74037 1jg8A 347 5.10e+00 1jg8A c.67.1.1 62946 1m6sA 347 5.15e+00 c.67.1.1 78701 1vjgA 218 6.02e+00 unknown_sccs -6447 1ad1A 266 6.51e+00 1aj2 c.1.21.1 29668 1i0aA 466 6.58e+00 1auwA a.127.1.1 61479 1cqqA 180 6.75e+00 1cqqA b.47.1.4 26422 1gpr 162 7.16e+00 1gpr b.84.3.1 28267 1rec 201 7.22e+00 1rec a.39.1.5 17326 2ae2A 260 7.30e+00 1bdb c.2.1.2 29945 1d5rA 324 7.31e+00 1d5rA b.7.1.1 23181 c.45.1.1 32697 1na3A 91 7.34e+00 k.38.1.1 85481 1pi4A 358 7.43e+00 e.3.1.1 -11774 1fsyA 358 7.57e+00 1gceA e.3.1.1 60016 1e7uA 961 7.72e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1dcs 311 7.84e+00 1dcs b.82.2.1 28124 1ci9A 392 8.19e+00 e.3.1.1 64767 1e8yA 966 8.21e+00 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1oaiA 59 8.26e+00 a.5.2.3 81255 1bueA 265 8.50e+00 1btl e.3.1.1 42727 1lehA 364 8.53e+00 1bw9A c.2.1.7 30268 c.58.1.1 33916 1icfI 65 8.83e+00 1icfI g.28.1.1 44958 1rgzA 363 8.83e+00 e.3.1.1 -11771 1ga0A 364 8.98e+00 1gceA e.3.1.1 60410 1uedA 406 9.16e+00 a.104.1.1 -1459 2bltA 361 9.25e+00 1gceA e.3.1.1 42739 1ezvD 245 9.43e+00 1be3D a.3.1.3 59546 f.23.11.1 59547 1kb9D 246 9.45e+00 a.3.1.3 77317 f.23.11.1 77318 1jy5A 212 9.57e+00 d.124.1.1 71940 1jjyA 636 9.70e+00 1jjyA 1dlyA 164 9.75e+00 1dlyA a.1.1.1 14983 1jpzA 473 1.02e+01 a.104.1.1 67069 1r2zA 274 1.05e+01 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1cpo 299 1.10e+01 1cpo a.39.3.1 17390 a.39.3.1 17391 1omrA 201 1.13e+01 a.39.1.5 -854 1nq7A 244 1.14e+01 a.123.1.1 -1682 1knwA 425 1.14e+01 b.49.2.3 -4274 c.1.6.1 -5229 1v54A 514 1.20e+01 f.24.1.1 -12235 1vhrA 184 1.21e+01 1vhrA c.45.1.1 32651 1dusA 194 1.21e+01 1dusA c.66.1.4 34182 1q7fA 286 1.23e+01 unknown_sccs -4599 1uocA 289 1.23e+01 unknown_sccs -7671 1mkmA 249 1.25e+01 a.4.5.33 79242 d.110.2.2 79243 1qlpA 394 1.28e+01 1ovaA e.1.1.1 42628 1o7eA 276 1.30e+01 e.3.1.1 -11766 1rpxA 230 1.31e+01 1rpxA c.1.2.2 28536 1n00A 321 1.33e+01 a.65.1.1 85241 1qyaA 307 1.35e+01 1lvfA 110 1.36e+01 a.47.2.1 74280 1el4A 195 1.37e+01 1ej3A a.39.1.5 59453 1que 303 1.45e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1ex1A 605 1.47e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1tf4A 605 1.50e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1mixA 206 1.50e+01 a.11.2.1 79166 b.55.1.5 79167 1jf2A 195 1.51e+01 1ej3A a.39.1.5 62930 1m7sA 484 1.53e+01 e.5.1.1 74574 1vduA 172 1.53e+01 unknown_sccs -1651 1h2sA 225 1.57e+01 f.13.1.1 76578 1div 149 1.57e+01 1div d.99.1.1 40692 d.100.1.1 40693 1ne9A 335 1.62e+01 d.108.1.4 -10805 d.108.1.4 -10806 1iapA 211 1.67e+01 a.91.1.1 62119 1go2A 304 1.68e+01 b.43.4.2 76243 c.25.1.1 76244 1sdjA 310 1.68e+01 d.21.1.2 -9420 d.21.1.2 -9421 1qwlA 505 1.69e+01 e.5.1.1 -11823 1ogiA 303 1.72e+01 b.43.4.2 -4042 c.25.1.1 -6587 1k7wA 468 1.75e+01 a.127.1.1 72130 1rcuA 195 1.77e+01 unknown_sccs -7279 3eipA 84 1.77e+01 3eipA d.26.2.1 38434 2occA 514 1.79e+01 2occA f.24.1.1 43518 1hy0A 466 1.81e+01 1auwA a.127.1.1 61392 1mp1A 111 1.81e+01 unknown_sccs -996 1r6xA 395 1.81e+01 b.122.1.3 -5125 c.26.1.5 -6620 1hm6A 346 1.83e+01 1avc a.65.1.1 18147 1su8A 636 1.84e+01 e.26.1.2 -12015 1furA 467 1.84e+01 1furA a.127.1.1 19403 2gdm 153 1.85e+01 2gdm a.1.1.2 15212 1fcyA 236 1.88e+01 2lbd a.123.1.1 19282 1i3zA 103 1.89e+01 d.93.1.1 83667 1elrA 131 1.91e+01 1a17 a.118.8.1 19209 2ahjA 206 1.97e+01 2ahjA d.149.1.1 41772 1kkhA 317 1.99e+01 d.14.1.5 72645 d.58.26.3 72646 1dgfA 497 1.99e+01 1cf9A e.5.1.1 42782 1or3A 165 2.02e+01 1nfn a.24.1.1 16522 1dm5A 315 2.03e+01 1avc a.65.1.1 18186 1q0rA 298 2.04e+01 unknown_sccs -8330 1a68 95 2.06e+01 1t1dA d.42.1.2 38639 1g8fA 511 2.09e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1mxmA 254 2.10e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1cliA 345 2.11e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1s98A 107 2.11e+01 1jtdB 273 2.13e+01 b.69.5.2 67265 1jgjA 217 2.13e+01 1c3wA f.13.1.1 62952 1kl1A 419 2.14e+01 c.67.1.4 72663 1zrn 232 2.14e+01 1qq5A c.108.1.1 43323 1pylA 97 2.16e+01 1k78A 149 2.16e+01 a.4.1.5 68255 a.4.1.5 68256 1rztA 331 2.19e+01 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1afrA 345 2.23e+01 1afrA a.25.1.2 16805 1p5sA 203 2.25e+01 a.40.1.1 -900 1qv1A 195 2.27e+01 a.39.1.5 -830 1cf9A 753 2.28e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1dceB 331 2.32e+01 1dceB a.102.4.3 18872 1lghA 56 2.37e+01 1lghA f.3.1.1 43733 1repC 251 2.40e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1nekC 129 2.40e+01 f.21.2.2 80431 1dsxA 87 2.42e+01 1t1dA d.42.1.2 38644 1avsA 90 2.42e+01 1cll a.39.1.5 17226 1gtmA 419 2.43e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1n83A 270 2.44e+01 a.123.1.1 80276 1rx0A 393 2.45e+01 a.29.3.1 -742 e.6.1.1 -11858 1q5dA 419 2.47e+01 a.104.1.1 -1454 1g1tA 157 2.48e+01 d.169.1.1 65104 g.3.11.1 65105 1p80A 753 2.48e+01 c.23.16.3 -6547 e.5.1.1 -11840 1rifA 282 2.52e+01 unknown_sccs -7265 1fm9D 272 2.52e+01 2prgA a.123.1.1 19313 1rgyA 360 2.52e+01 e.3.1.1 -11768 2ahjB 212 2.54e+01 2ahjB b.34.4.4 24599 1jrrA 382 2.55e+01 e.1.1.1 63256 1keaA 221 2.63e+01 a.96.1.2 68491 1mun 225 2.64e+01 1mun a.96.1.2 18744 3gcb 470 2.66e+01 3gcb d.3.1.1 37032 1ku1A 230 2.68e+01 a.118.3.1 72996 1qi7A 253 2.68e+01 1qi7A d.165.1.1 42210 1igwA 434 2.69e+01 c.1.12.7 62370 1gcb 454 2.72e+01 3gcb d.3.1.1 37034 1aj8A 371 2.75e+01 1aj8A a.103.1.1 18900 1l0gA 358 2.75e+01 e.3.1.1 73400 1jtkA 136 2.81e+01 c.97.1.1 71862 1ornA 226 2.82e+01 a.96.1.1 87342 5pal 109 2.83e+01 1a75A a.39.1.4 17215 1rfmA 344 2.84e+01 c.122.1.1 -8032 1hf8A 289 2.85e+01 1hg5A unknown_sccs -399 unknown_sccs -1628 1kb9G 125 2.85e+01 f.27.1.1 77322 1e3uA 246 2.87e+01 1fofA e.3.1.1 42755 1jx4A 352 2.88e+01 unknown_sccs -10188 unknown_sccs -11898 1n4qB 377 2.92e+01 a.102.4.3 -1424 1p9bA 442 2.95e+01 c.37.1.10 -7115 1qj2B 809 2.98e+01 1qj2B 1fhuA 320 3.01e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1d6jA 211 3.01e+01 1d6jA c.37.1.4 31940 1m7gA 211 3.01e+01 c.37.1.4 78724 2dkb 433 3.05e+01 2dkb c.67.1.4 34438 1oq9A 363 3.05e+01 a.25.1.2 87257 1q59A 172 3.08e+01 f.1.4.1 -12062 1korA 400 3.11e+01 c.26.2.1 72824 d.210.1.1 72825 1vsd 152 3.14e+01 1cxqA c.55.3.2 33625 1is1A 185 3.15e+01 d.67.3.1 83704 1d7uA 433 3.18e+01 2dkb c.67.1.4 34439 1ls6A 295 3.19e+01 c.37.1.5 -7026 1lfaA 187 3.23e+01 1ido c.62.1.1 34122 1n1bA 549 3.26e+01 a.102.4.1 79799 a.128.1.3 79800 1ukkA 142 3.27e+01 d.227.1.1 -11206 1mroC 247 3.27e+01 1mroC d.58.31.1 39437 1fsgA 233 3.27e+01 1qk3A c.61.1.1 34029 1q33A 292 3.28e+01 d.113.1.1 -10901 1v9mA 323 3.28e+01 unknown_sccs -12292 1ngvA 534 3.30e+01 c.111.1.2 85698 1bu7A 455 3.33e+01 1bu7A a.104.1.1 18937 1fqtA 112 3.35e+01 1fqtA b.33.1.1 24441 1g60A 260 3.36e+01 c.66.1.11 70151 1p3wA 404 3.39e+01 c.67.1.3 87752 1f3z 161 3.39e+01 1gpr b.84.3.1 28273 1f1eA 154 3.41e+01 a.22.1.2 64927 1efnB 152 3.41e+01 1efnB d.102.1.1 40699 1iqqA 200 3.43e+01 d.124.1.1 66274 1lniA 96 3.46e+01 d.1.1.2 74046 2sas 185 3.48e+01 2sas a.39.1.5 17258 1iyhA 198 3.51e+01 a.45.1.1 83790 c.47.1.5 83791 1r6wA 322 3.53e+01 c.1.11.2 -5563 d.54.1.1 -9821 1i4wA 353 3.55e+01 c.66.1.24 66028 1gd0A 122 3.56e+01 1dptA d.80.1.3 39834 1uwzA 136 3.57e+01 1epxA 370 3.59e+01 1fbaA c.1.10.1 29150 1r8sE 203 3.59e+01 a.118.3.1 -1579 1nrfA 262 3.60e+01 e.3.1.1 -11780 1dfoA 417 3.61e+01 1bj4A c.67.1.4 34480 1qb2A 109 3.67e+01 1qb2A a.36.1.1 17125 1f1uA 323 3.74e+01 d.32.1.3 83200 d.32.1.3 83201 1mkp 144 3.79e+01 1vhrA c.45.1.1 32654 1reoA 486 3.80e+01 c.3.1.2 -5997 d.16.1.5 -9217 1c3yA 108 3.80e+01 1c3yA a.39.2.1 17387 1tafA 68 3.80e+01 1tafA a.22.1.3 16481 1f1zA 273 3.81e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1t1dA 100 3.82e+01 1t1dA d.42.1.2 38637 1efyA 350 3.85e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1n2fA 142 3.86e+01 d.227.1.1 79853 1erjA 393 3.88e+01 1erjA b.69.4.1 27660 1q7hA 153 3.90e+01 b.122.1.1 -5124 unknown_sccs -9313 1v8gA 329 3.93e+01 a.46.2.1 -953 c.27.1.1 -6644 1ngnA 155 3.94e+01 a.96.1.2 85697 1itg 166 3.95e+01 1b9dA c.55.3.2 33661 1qwiA 143 3.95e+01 d.227.1.1 -11183 1hbnC 248 3.96e+01 1mroC d.58.31.1 60902 1rgeA 96 3.96e+01 1rgeA d.1.1.2 36028 1bo1A 416 3.98e+01 1bo1A d.143.1.2 41591 1n91A 108 3.98e+01 d.206.1.1 80326