# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-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 1k8kG 151 1.52e-02 a.118.13.1 68313 1q4mA 221 2.70e-02 unknown_sccs -1910 1bxlA 181 3.55e-02 1maz f.1.4.1 43396 1qwlA 505 7.21e-02 e.5.1.1 -11823 2bidA 197 1.72e-01 2bidA f.1.4.1 43398 1pq1A 196 3.01e-01 f.1.4.1 -12055 1jeqA 609 3.39e-01 1jeqA a.140.2.1 64748 unknown_sccs -4427 unknown_sccs -7991 7catA 506 5.80e-01 1cf9A e.5.1.1 42781 1rpa 342 6.10e-01 1cviA c.60.1.2 33983 1af3 196 7.93e-01 1maz f.1.4.1 43397 1jk0B 345 8.13e-01 a.25.1.2 63143 1maz 221 1.00e-00 1maz f.1.4.1 43393 1hg2A 289 1.01e+00 1hg5A unknown_sccs -401 unknown_sccs -1630 1kmiZ 214 1.19e+00 h.4.11.1 72752 1hf8A 289 1.38e+00 1hg5A unknown_sccs -399 unknown_sccs -1628 1dghB 498 1.45e+00 1cf9A e.5.1.1 42791 1fjgD 209 1.84e+00 1c05A d.66.1.2 39553 1pi1A 185 1.84e+00 unknown_sccs -762 2bgu 351 1.87e+00 1c3jA c.87.1.1 35460 1c3jA 351 1.97e+00 1c3jA c.87.1.1 35459 1jyoE 105 2.02e+00 d.184.1.2 67487 1fxxA 482 2.11e+00 1fxxA c.55.3.5 33726 1ecd 136 2.18e+00 1flp a.1.1.2 15211 1eca 136 2.18e+00 1flp a.1.1.2 15209 1dioG 173 2.34e+00 1dioG a.23.2.1 16496 1jixA 351 2.57e+00 1c3jA c.87.1.1 63081 1f16A 192 2.61e+00 1f16A f.1.4.1 43400 1jg7A 351 2.66e+00 1c3jA c.87.1.1 62945 1eco 136 2.72e+00 1flp a.1.1.2 15208 1lrzA 426 2.80e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1lh1 153 2.89e+00 2gdm a.1.1.2 15222 1dgfA 497 2.94e+00 1cf9A e.5.1.1 42782 1gdj 153 3.21e+00 2gdm a.1.1.2 15213 1dguA 183 3.22e+00 1dguA a.39.1.5 17333 1g9lA 144 3.50e+00 1g9lA a.144.1.1 60399 1hg5A 289 3.57e+00 1hg5A unknown_sccs -400 unknown_sccs -1629 1cg7A 93 3.64e+00 1cktA a.21.1.1 16428 1k8tA 510 4.07e+00 e.41.1.1 68316 1ash 150 4.22e+00 1ash a.1.1.2 15622 1in4A 334 4.27e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 2gdm 153 4.33e+00 2gdm a.1.1.2 15212 1kxpD 458 4.51e+00 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1mgn 154 4.58e+00 1a6m a.1.1.2 15097 2lh2 153 4.69e+00 2gdm a.1.1.2 15220 1htjF 210 4.70e+00 1htjF a.91.1.1 61254 1h97A 147 4.80e+00 1h97A a.1.1.2 60812 1n8vA 112 4.87e+00 unknown_sccs 85457 1hqvA 191 5.12e+00 1hqvA a.39.1.8 61160 1j78A 458 5.23e+00 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1mh3A 421 5.90e+00 a.4.1.1 79112 c.94.1.1 79113 1el4A 195 5.90e+00 1ej3A a.39.1.5 59453 1bzpA 153 6.03e+00 1a6m a.1.1.2 15020 1iapA 211 6.18e+00 a.91.1.1 62119 1tbmA 326 6.29e+00 1kgnA 329 6.70e+00 a.25.1.2 68584 1ngmB 72 6.97e+00 j.104.1.1 85687 1rkpA 326 7.05e+00 a.125.1.1 -1729 1cii 602 7.16e+00 1cii f.1.1.1 43381 h.4.3.1 45787 1mlwA 301 7.42e+00 d.178.1.1 79289 1eexG 173 7.50e+00 1dioG a.23.2.1 16490 1in6A 334 7.52e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1q8iA 783 7.57e+00 c.55.3.5 -7635 e.8.1.1 -11885 2spo 154 7.72e+00 1a6m a.1.1.2 15053 1jr3E 334 7.72e+00 a.80.1.1 63253 c.37.1.20 63254 1nrfA 262 7.76e+00 e.3.1.1 -11780 1ihgA 370 8.12e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1bg7 176 8.15e+00 2fha a.25.1.1 16686 1b43A 340 8.30e+00 1a76 a.60.7.1 18092 c.120.1.2 33362 1cqxA 403 8.30e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1iqpA 327 8.50e+00 a.80.1.1 62649 c.37.1.20 62650 1hlb 158 8.95e+00 1hlb a.1.1.2 15625 1i3jA 116 9.05e+00 1i3jA e.30.1.1 61594 1nd7A 374 9.24e+00 d.148.1.1 -11394 1f3mC 297 9.54e+00 1hcl d.144.1.7 41677 1qo0D 196 9.67e+00 1qo0D c.23.1.3 31125 3ertA 261 9.91e+00 3erdA a.123.1.1 19292 1hjp 203 1.05e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1nfvA 179 1.09e+01 a.25.1.1 85642 5csmA 256 1.10e+01 5csmA a.130.1.2 19494 1lngA 87 1.17e+01 d.201.1.1 74045 1jcrA 377 1.18e+01 a.118.6.1 66506 1mu5A 471 1.22e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1h2vC 771 1.23e+01 unknown_sccs 76592 unknown_sccs 76593 unknown_sccs 76594 1v64A 108 1.25e+01 1vj7A 393 1.26e+01 unknown_sccs -1265 unknown_sccs -9814 1qntA 176 1.26e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1au7A 146 1.26e+01 1au7A a.4.1.1 15995 a.35.1.1 17021 3vtk 343 1.26e+01 1qhiA c.37.1.1 31884 1ho8A 480 1.26e+01 1ho8A a.118.1.9 61107 1c20A 128 1.27e+01 1c20A a.4.3.1 16079 1mp8A 281 1.29e+01 d.144.1.7 -11361 1ji8A 111 1.29e+01 d.203.1.1 66733 1di1A 300 1.29e+01 1di1A a.128.1.4 19446 1tgoA 773 1.31e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1auwA 468 1.34e+01 1auwA a.127.1.1 19416 1ddbA 195 1.35e+01 1ddbA f.1.4.1 43399 1rwyA 109 1.36e+01 a.39.1.4 -825 1b6cB 342 1.36e+01 1b6cB d.144.1.7 41673 1cuk 203 1.39e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1qs1A 462 1.40e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1pmi 440 1.42e+01 1pmi b.82.1.3 28114 1d8dA 377 1.42e+01 1ft1A a.118.6.1 19185 1fps 348 1.42e+01 1uby a.128.1.1 19436 2hpaA 342 1.43e+01 1cviA c.60.1.2 33985 1bed 181 1.44e+01 1fvkA unknown_sccs -7444 1kyqA 274 1.50e+01 c.2.1.11 73281 e.37.1.1 73282 1qjaA 245 1.50e+01 1qjaA a.118.7.1 19204 1volA 204 1.50e+01 1tfb a.74.1.2 18370 a.74.1.2 18371 1ox3A 109 1.51e+01 h.1.17.1 -12938 1kx5D 125 1.53e+01 a.22.1.1 77596 1n27A 96 1.56e+01 b.34.9.2 -3585 1kqfC 217 1.64e+01 f.21.1.1 72874 1ux5A 411 1.71e+01 unknown_sccs -1768 1kx9A 112 1.72e+01 unknown_sccs 77602 1hfs 160 1.77e+01 1hfc d.92.1.11 40370 1a6m 151 1.77e+01 1a6m a.1.1.2 15018 2trcP 217 1.80e+01 1b9yC c.47.1.6 33051 1ekeA 230 1.83e+01 1ekeA c.55.3.1 33572 1ezwA 349 1.85e+01 1ezwA c.1.16.3 29558 1evsA 187 1.86e+01 1evsA a.26.1.1 16845 1my6A 199 1.87e+01 a.2.11.1 85232 d.44.1.1 85233 1hg4A 279 1.96e+01 1lbd a.123.1.1 19333 1ni3A 392 1.97e+01 c.37.1.8 80531 d.15.10.2 80532 1fx8A 281 1.99e+01 f.19.1.1 43651 1sxjE 354 1.99e+01 1eumA 165 2.01e+01 1eumA a.25.1.1 59507 1i0aA 466 2.03e+01 1auwA a.127.1.1 61479 1uby 367 2.03e+01 1uby a.128.1.1 19435 1jztA 246 2.05e+01 c.104.1.1 63319 1fo1A 271 2.06e+01 1fo1A c.10.2.3 30869 d.58.7.2 39213 1ow4A 129 2.06e+01 a.39.2.1 -876 4aahB 69 2.11e+01 4aahB a.137.2.1 19625 1mv8A 436 2.11e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1mbd 153 2.12e+01 1a6m a.1.1.2 15033 1mr3F 181 2.13e+01 c.37.1.8 79422 1oc2A 348 2.14e+01 c.2.1.2 -5753 1h0oA 390 2.15e+01 a.25.1.2 70845 3lynA 136 2.17e+01 1lis a.19.1.1 16413 1m2oA 768 2.19e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 5pal 109 2.23e+01 1a75A a.39.1.4 17215 1csmA 256 2.25e+01 5csmA a.130.1.2 19495 1s6cA 183 2.27e+01 a.39.1.5 -858 1gweA 503 2.29e+01 e.5.1.1 70667 1aisA 182 2.37e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1qhtA 775 2.39e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1flcB 175 2.44e+01 1flcB h.3.1.1 45716 1cjaA 342 2.46e+01 1cjaA d.144.1.3 41708 1opjA 293 2.47e+01 d.144.1.7 87230 1uyrA 737 2.53e+01 c.14.1.4 -6258 c.14.1.4 -6259 1jy2O 56 2.55e+01 h.1.8.1 67441 1jy3O 56 2.55e+01 h.1.8.1 67447 2ki5A 366 2.58e+01 1qhiA c.37.1.1 31862 1nd6A 354 2.61e+01 c.60.1.2 80407 1zmeC 70 2.70e+01 1zmeC g.38.1.1 45081 h.1.3.1 45514 5eau 548 2.71e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1kx5A 135 2.72e+01 a.22.1.1 77593 1dvoA 152 2.73e+01 1dvoA a.136.1.1 19623 1kl9A 182 2.73e+01 b.40.4.5 72681 1mfqC 129 2.80e+01 a.36.1.1 79046 1furA 467 2.80e+01 1furA a.127.1.1 19403 1de4C 640 2.82e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 3nodB 423 2.87e+01 1nseA d.174.1.1 42513 1asx 159 2.89e+01 1a6dA c.8.5.2 30821 1mojA 182 2.89e+01 a.25.1.1 -669 1ldfA 281 2.90e+01 f.19.1.1 73845 1vjs 483 2.93e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1e2kA 331 2.93e+01 1qhiA c.37.1.1 31854 1p8cA 145 2.94e+01 unknown_sccs -1927 1oheA 348 2.94e+01 c.45.1.1 87013 c.45.1.1 87014 1dbhA 354 2.94e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1g72B 69 2.94e+01 4aahB a.137.2.1 19627 1q59A 172 2.97e+01 f.1.4.1 -12062 1l0oC 243 2.98e+01 a.4.13.2 73405 1kimA 366 3.00e+01 1qhiA c.37.1.1 31864 1k8kE 178 3.01e+01 a.148.1.1 68311 1ge9A 184 3.05e+01 1dd5A d.67.3.1 60463 1j2mA 99 3.05e+01 a.165.1.1 84018 1h0aA 158 3.08e+01 a.118.9.1 76434 1hbzA 498 3.14e+01 1cf9A e.5.1.1 60937 1dx0A 219 3.42e+01 1b10A d.6.1.1 37324 1h8aC 128 3.44e+01 a.4.1.3 65731 a.4.1.3 65732 1eh7A 207 3.44e+01 1sfe a.4.2.1 16075 c.55.7.1 33750 1fnoA 417 3.46e+01 c.56.5.4 75841 d.58.19.1 70145 1s35A 214 3.49e+01 a.7.1.1 -391 a.7.1.1 -392 1cdp 109 3.50e+01 1a75A a.39.1.4 17197 1qv1A 195 3.56e+01 a.39.1.5 -830 1n2aA 201 3.70e+01 a.45.1.1 -938 c.47.1.5 -7463 1j26A 112 3.81e+01 1fjgT 106 3.83e+01 1fjfT a.7.6.1 16338 1cnt3 187 3.89e+01 1cnt3 1a76 326 3.91e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1l0lA 446 3.91e+01 d.185.1.1 84482 d.185.1.1 84483 1nfp 228 3.92e+01 1nfp c.1.16.2 29555 1ddzA 496 3.94e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1ed1A 135 3.96e+01 1hiwA a.61.1.1 18130 1kepA 348 3.97e+01 c.2.1.2 68536 1nv8A 284 3.99e+01 c.66.1.30 86224