# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1tbmA 326 4.37e-01 a.211.1.2 106744 1q18A 332 5.05e-01 c.55.1.7,c.55.1.7 104470,104471 1ihp 438 5.13e-01 1ihp c.60.1.2 33993 6gsvA 217 9.20e-01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1myo 118 1.47e+00 2myo d.211.1.1 19174 2myo 118 1.50e+00 2myo d.211.1.1 19175 1sz2A 332 1.64e+00 1zv1A 65 2.18e+00 1qfxA 460 2.35e+00 1qfxA c.60.1.2 33994 1nd7A 374 2.56e+00 d.148.1.1 91817 1zboA 210 2.57e+00 2c4jA 218 2.61e+00 1xw5A 217 2.63e+00 1jpaA 312 2.67e+00 d.144.1.7 67011 1f7uA 607 4.47e+00 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1eemA 241 5.23e+00 1eemA a.45.1.1,c.47.1.5 17717,33011 2fiyA 309 5.72e+00 1x74A 360 5.96e+00 1jb0I 38 6.01e+00 1jb0I f.23.17.1 62826 1y3nA 490 6.10e+00 1x1fA 149 6.24e+00 1w07A 659 6.31e+00 1y5iC 225 6.73e+00 1efuA 385 7.01e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1b4pA 217 7.06e+00 a.45.1.1,c.47.1.5 83158,83159 2lefA 86 8.45e+00 2lefA a.21.1.1 16433 2afwA 329 9.20e+00 1zd3A 555 9.52e+00 1vj5A 555 9.60e+00 c.108.1.2,c.69.1.11 100799,100800 1bd8 156 9.77e+00 1bd8 d.211.1.1 19157 1hp5A 512 1.01e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1hp4A 512 1.01e+01 1hp4A c.1.8.6,d.92.2.1 61111,61112 1jakA 512 1.01e+01 c.1.8.6,d.92.2.1 66472,66473 1hf8A 289 1.03e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1ufaA 520 1.11e+01 a.8.3.3,c.6.2.4 99329,99330 1x6vA 630 1.15e+01 1kpsB 171 1.18e+01 a.118.12.1 68787 1qwoA 442 1.19e+01 c.60.1.2 104620 2aheA 267 1.26e+01 1qrjB 199 1.26e+01 1qrjB a.28.3.1 16952 1w1oA 534 1.55e+01 d.58.32.4,d.145.1.1 109071,109072 1ad3A 452 1.59e+01 1ad3A c.82.1.1 35335 1e6iA 121 1.67e+01 1b91A a.29.2.1 16969 1r5zA 323 1.68e+01 f.40.1.1 97135 1gewA 356 1.70e+01 1gewA c.67.1.1 60470 1i9gA 280 1.77e+01 c.66.1.13 62090 1sszA 34 1.87e+01 j.35.1.1 105999 1hg2A 289 1.93e+01 1hg5A a.7.8.2,a.118.9.3 90358,90359 1fhuA 320 2.00e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1c7nA 399 2.01e+01 1d2fA c.67.1.3 34413 1x91A 153 2.06e+01 1zq9A 285 2.11e+01 1trrA 107 2.14e+01 1jhgA a.4.12.1 19017 1hdiA 413 2.21e+01 16pk c.86.1.1 60964 1mzbA 136 2.23e+01 a.4.5.42 91497 1mun 225 2.40e+01 1mun a.96.1.2 18744 1hg5A 289 2.40e+01 1hg5A a.7.8.2,a.118.9.3 90360,90361 1v9mA 323 2.43e+01 f.40.1.1 100543 2ccmA 191 2.43e+01 1etu 394 2.48e+01 1efcA c.37.1.8 64737 1de5A 426 2.51e+01 1de5A c.1.15.2 29402 2fmcA 82 2.51e+01 1efcA 393 2.54e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1h2vC 771 2.61e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1im5A 180 2.70e+01 c.33.1.3 66211 1sq5A 308 2.90e+01 c.37.1.6 105882 1v1rA 400 3.01e+01 c.36.1.11 108272 1gumA 222 3.02e+01 1pgtA a.45.1.1,c.47.1.5 17683,32977 2esnA 310 3.04e+01 1p4dA 330 3.10e+01 d.89.1.5 94101 2mev2 256 3.11e+01 1aym2 2ctoA 93 3.14e+01 1yy7A 213 3.19e+01 1br1B 150 3.29e+01 1wdcC a.39.1.5 17309 1m98A 317 3.30e+01 a.175.1.1,d.17.4.6 78866,78867 1jk8B 190 3.34e+01 1iakB b.1.1.2,d.19.1.1 63147,63148 1fsu 492 3.39e+01 1auk c.76.1.2 35032 1fpoA 171 3.40e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2a6sA 84 3.46e+01 2wrpR 107 3.49e+01 1jhgA a.4.12.1 19010 1ohfA 644 3.51e+01 b.121.4.8 93014 1gulA 222 3.51e+01 1pgtA a.45.1.1,c.47.1.5 17675,32969 1no1A 126 3.55e+01 a.179.1.1 85913 2iu5A 195 3.59e+01 1d6gA 47 3.61e+01 1d6gA g.33.1.1 44976 1mg2D 155 3.69e+01 a.3.1.1 79062 1z6uA 150 3.70e+01 1hrkA 359 3.76e+01 1hrkA c.92.1.1 61228 2a6hC 1119 3.76e+01 1o5hA 214 3.78e+01 a.191.1.1 92497 1m6kA 251 3.82e+01 e.3.1.1 78695 2fqmA 75 3.83e+01 1jhgA 101 3.89e+01 1jhgA a.4.12.1 19009 1xioA 261 3.98e+01 1iw7C 1119 4.00e+01 e.29.1.1 71474 2db0A 253 4.02e+01 1zejA 293 4.05e+01 1wjgA 137 4.07e+01 2b1eA 564 4.10e+01 1jhdA 396 4.25e+01 b.122.1.3,c.26.1.5 66712,66713 1qwyA 291 4.33e+01 b.84.3.2 96509 1llmC 88 4.34e+01 g.37.1.1,g.37.1.1 91059,91060 1fzyA 149 4.36e+01 d.20.1.1 65072 2gsvA 80 4.63e+01 2aclB 244 4.66e+01 1jweA 114 4.82e+01 1b79A a.81.1.1 18455 2grrB 170 4.83e+01 2bbrA 195 4.93e+01 2mtaC 147 4.99e+01 2mtaC a.3.1.1 15908 1vf1A 229 4.99e+01 1ycsB 239 5.08e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1huvA 380 5.09e+01 c.1.4.1 61277 2atjA 308 5.09e+01 1bgp a.93.1.1 18675 1b8aA 438 5.12e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2afaA 425 5.12e+01 1mgpA 313 5.25e+01 c.119.1.1 79098 2gsfA 373 5.27e+01 1p4cA 380 5.28e+01 c.1.4.1 94100 1fxtA 149 5.29e+01 d.20.1.1 65055 1jhnA 424 5.30e+01 b.104.1.1,b.29.1.12 66722,70060 1aihA 170 5.31e+01 1aihA d.163.1.1 42149 1jmtB 28 5.33e+01 1ewfA 456 5.59e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1tq4A 413 5.63e+01 c.37.1.8 107201 2aplA 157 5.78e+01 1muyA 225 5.78e+01 1mun a.96.1.2 18745 1qcrF 103 5.97e+01 1be3F f.27.1.1 43676 1qd9A 124 6.03e+01 1qu9A d.79.1.1 39758 1ugpA 203 6.24e+01 d.149.1.1 107831 1z2nX 324 6.26e+01 2ki5A 366 6.26e+01 1qhiA c.37.1.1 31862 1d5wC 126 6.35e+01 1dbwA c.23.1.1 31101 1ireA 204 6.37e+01 d.149.1.1 76769 1xqrA 296 6.46e+01 1x7yA 400 6.68e+01 1xmeA 568 6.69e+01 1n1jA 93 6.69e+01 a.22.1.3 79813 1t4gA 322 6.83e+01 a.60.4.1,c.37.1.11 106418,106419 1v54H 85 6.93e+01 a.51.1.1 100329 1tqyB 415 7.06e+01 c.95.1.1,c.95.1.1 107247,107248 1t92A 116 7.10e+01 1de6A 426 7.10e+01 1de5A c.1.15.2 29398 1r6wA 322 7.13e+01 c.1.11.2,d.54.1.1 97165,97166 1vzoA 355 7.17e+01 d.144.1.7 108971 1aoiC 116 7.21e+01 1aoiC a.22.1.1 16440 1fhvA 323 7.24e+01 1fhuA c.1.11.2,d.54.1.1 29235,38879 1kinA 366 7.24e+01 1be3F 110 7.25e+01 1be3F f.27.1.1 43668 1bj8 109 7.28e+01 1bquA b.1.2.1 22070 1xfsA 178 7.34e+01 d.129.3.5 109589 2occH 85 7.37e+01 2occH a.51.1.1 17796 1kpkA 473 7.41e+01 f.20.1.1 68776 1zvdA 380 7.46e+01 1acp 77 7.60e+01 1acp a.28.1.1 16931 1ni3A 392 7.63e+01 c.37.1.8,d.15.10.2 80531,80532 1iqrA 420 7.84e+01 a.99.1.1,c.28.1.1 66275,66276 1f3aA 222 8.10e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1buyA 166 8.15e+01 1eerA a.26.1.2 16848 1u5dA 108 8.32e+01 1kfuS 184 8.34e+01 a.39.1.8 68574 1tlqA 189 8.38e+01 a.195.1.1 107134 1eia 207 8.39e+01 1eia a.28.3.1,a.73.1.1 16951,18331 1noyA 388 8.54e+01 1clqA c.55.3.5 33713 1fg7A 356 8.54e+01 1gewA c.67.1.1 59819 1bs2A 607 8.61e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 16930,31597,39563 1q16A 1247 8.62e+01 b.52.2.2,c.81.1.1 95546,95547 1vf6A 83 8.67e+01 a.194.1.1 100600 1y5iA 1246 8.69e+01 1xjzA 233 8.84e+01 1alvA 173 8.97e+01 1alvA a.39.1.8 17370