# List of top-scoring protein chains for t2k-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 1t62A 166 9.45e-04 1cr5A 189 2.38e-01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1od6A 160 5.51e-01 c.26.1.3 86836 1at0 145 1.47e+00 1at0 b.86.1.1 28374 1bbzE 58 2.09e+00 1bbzA b.34.2.1 24479 1qcsA 211 2.16e+00 1qcsA b.52.2.3 26927 d.31.1.1 38461 1ov3A 138 2.27e+00 b.34.2.1 87451 b.34.2.1 87452 1gnyA 153 2.35e+00 b.18.1.11 65404 3tmkA 216 2.45e+00 3tmkA c.37.1.1 31920 1bbzA 58 2.81e+00 1bbzA b.34.2.1 24477 1kpgA 287 2.83e+00 c.66.1.18 68735 3fruA 269 2.89e+00 1agdA b.1.1.2 20657 d.19.1.1 38150 2tmkA 216 3.09e+00 3tmkA c.37.1.1 31928 1jhdA 396 3.28e+00 b.122.1.3 66712 c.26.1.5 66713 1aboA 62 3.46e+00 1bbzA b.34.2.1 24474 1kp9B 287 4.97e+00 c.66.1.18 68734 1gh8A 89 5.05e+00 1gh8A d.58.12.1 39309 1kamA 194 5.07e+00 c.26.1.3 72254 1a6m 151 5.16e+00 1a6m a.1.1.2 15018 1gjnA 153 5.19e+00 a.1.1.2 70191 1k9uA 78 5.37e+00 a.39.1.10 84348 1ng2A 193 5.60e+00 b.34.2.1 85660 b.34.2.1 85661 1dwtA 153 5.80e+00 1a6m a.1.1.2 15190 1spgA 144 5.82e+00 1abwA a.1.1.2 15409 1mgn 154 5.94e+00 1a6m a.1.1.2 15097 1bzpA 153 6.14e+00 1a6m a.1.1.2 15020 6acn 754 6.29e+00 1amj c.8.2.1 30721 c.83.1.1 35397 1o0xA 262 6.59e+00 d.127.1.1 80755 1f20A 435 6.77e+00 b.43.4.1 64932 c.25.1.4 64933 1lj2C 28 7.06e+00 1iw7E 99 7.24e+00 a.143.1.1 71476 1q08A 99 7.39e+00 a.6.1.3 -381 1myt 146 7.48e+00 1a6m a.1.1.2 15207 1kzfA 230 7.67e+00 d.108.1.3 73354 1blxA 326 8.19e+00 1hcl d.144.1.7 41596 2spo 154 8.47e+00 1a6m a.1.1.2 15053 1su4A 994 9.10e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1l7vA 326 9.12e+00 f.22.1.1 73672 1ckaA 57 9.14e+00 1ckaA b.34.2.1 24459 1ht9A 76 9.16e+00 4icb a.39.1.1 61252 1pcxA 810 9.36e+00 a.71.2.1 -1098 b.2.8.1 -2910 c.62.1.2 -7984 d.109.2.1 -10823 g.41.10.1 -12792 1lm8B 118 9.47e+00 d.15.1.1 74033 1i07A 60 9.61e+00 1aojA b.34.2.1 61477 7acn 754 1.07e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1m5yA 408 1.09e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1dp7P 76 1.09e+01 1dp7P a.4.5.20 16159 1l1oC 181 1.18e+01 b.40.4.3 73480 1oi1A 221 1.18e+01 b.34.9.3 87037 b.34.9.3 87038 1b0jA 754 1.19e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1rg9A 383 1.20e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1jb7B 260 1.20e+01 1otcB b.40.4.3 62839 1m2vB 926 1.21e+01 a.71.2.1 78497 b.2.8.1 78498 c.62.1.2 78499 d.109.2.1 78500 g.41.10.1 78501 1l6oA 95 1.22e+01 b.36.1.1 84534 1sknP 92 1.27e+01 1sknP a.37.1.1 17127 1mxb 383 1.29e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1amj 754 1.29e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1g7oA 215 1.33e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1mxa 383 1.35e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1shyB 551 1.36e+01 1m7bA 184 1.36e+01 c.37.1.8 74572 1gvhA 396 1.40e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1dcjA 81 1.42e+01 1dcjA d.68.3.3 59115 1o7iA 119 1.46e+01 b.40.4.3 86642 1tplA 426 1.52e+01 1ax4A c.67.1.2 34387 4ubpB 126 1.52e+01 1ubpB b.85.3.1 28345 1k20A 310 1.55e+01 c.107.1.1 68027 1rkuA 206 1.56e+01 unknown_sccs -6823 1mbd 153 1.57e+01 1a6m a.1.1.2 15033 1ezvB 352 1.58e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 1utiA 58 1.61e+01 b.34.2.1 -3552 2lhb 149 1.62e+01 2fal a.1.1.2 15597 1qxyA 252 1.63e+01 d.127.1.1 -10993 1ig5A 75 1.66e+01 4icb a.39.1.1 62363 1fjgQ 105 1.68e+01 1fjfQ b.40.4.5 25352 1bgj 394 1.69e+01 1pbe c.3.1.2 30352 d.16.1.2 37883 1v4xA 144 1.69e+01 1h3oB 76 1.72e+01 a.22.1.3 76645 1bkb 136 1.72e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1qc9A 276 1.73e+01 1ckqA c.52.1.1 33235 3icb 75 1.79e+01 4icb a.39.1.1 17147 1j6qA 136 1.80e+01 b.40.9.1 77091 1eriA 276 1.85e+01 1ckqA c.52.1.1 33231 1eulA 994 1.87e+01 1eulA 1aojA 60 1.89e+01 1aojA b.34.2.1 24555 1i50B 1224 1.90e+01 e.29.1.1 61755 1azeA 56 1.91e+01 b.34.2.1 24536 1cl8A 276 1.93e+01 1ckqA c.52.1.1 33230 1ri9A 102 1.94e+01 b.34.2.1 -3579 1msk 331 1.95e+01 1msk d.173.1.1 42495 1oebA 62 2.00e+01 b.34.2.1 86909 1ikoP 178 2.08e+01 b.6.1.5 71243 1ubpB 122 2.09e+01 1ubpB b.85.3.1 28346 1ghhA 81 2.13e+01 1ghhA d.57.1.1 38940 1d6bA 42 2.15e+01 1b8wA g.9.1.1 44594 1qzzA 374 2.15e+01 a.4.5.29 -277 c.66.1.12 -8045 1i0cA 60 2.18e+01 1aojA b.34.2.1 61485 1nkqA 259 2.19e+01 1gdeA 389 2.20e+01 c.67.1.1 60456 1gd9A 389 2.21e+01 c.67.1.1 60454 1ltlA 279 2.25e+01 b.40.4.11 84701 1nwzA 125 2.31e+01 d.110.3.1 86370 1d6mA 653 2.33e+01 1d6mA e.10.1.1 43248 2phy 125 2.34e+01 3pyp d.110.3.1 40901 1l9wA 252 2.34e+01 c.1.10.1 84570 1c96A 753 2.36e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1oaiA 59 2.40e+01 a.5.2.3 81255 1hnnA 282 2.41e+01 c.66.1.15 65895 8acn 754 2.50e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1cj3A 392 2.54e+01 1pbe c.3.1.2 30347 d.16.1.2 37878 1pbe 394 2.55e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1q7hA 153 2.56e+01 b.122.1.1 -5124 unknown_sccs -9313 1qfeA 252 2.58e+01 1qfeA c.1.10.1 29167 1griA 217 2.60e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1fhjB 146 2.63e+01 1abwA a.1.1.2 59838 3ebx 62 2.65e+01 3ebx g.7.1.1 44389 1ei9A 279 2.68e+01 1ei9A c.69.1.13 34713 1ddgA 374 2.71e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1ckqA 276 2.75e+01 1ckqA c.52.1.1 33229 1k1aA 241 2.75e+01 d.211.1.1 67992 4icb 76 2.75e+01 4icb a.39.1.1 17145 1no5A 114 2.76e+01 unknown_sccs -9785 1n8nA 212 2.81e+01 unknown_sccs -6830 1gcqA 61 2.82e+01 1ckaA b.34.2.1 60434 1k0iA 394 2.93e+01 c.3.1.2 67942 d.16.1.2 67943 1onjA 61 2.94e+01 g.7.1.1 -12530 1lckA 175 2.97e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1fgyA 127 2.97e+01 1faoA b.55.1.1 26976 2phh 394 2.98e+01 1pbe c.3.1.2 30353 d.16.1.2 37884 3pyp 125 2.98e+01 3pyp d.110.3.1 40897 1td5A 202 3.01e+01 1o97C 264 3.02e+01 c.26.2.3 81232 1uj0A 62 3.03e+01 b.34.2.1 -3570 1gcvB 136 3.06e+01 1cg5B a.1.1.2 15589 1j97A 211 3.06e+01 1f5sA c.108.1.4 62753 1luzA 88 3.11e+01 b.40.4.5 74271 1l7mA 211 3.11e+01 c.108.1.4 73664 1f5sA 211 3.15e+01 1f5sA c.108.1.4 59656 1a5r 103 3.16e+01 1a5r d.15.1.1 37597 1j7yB 146 3.17e+01 a.1.1.2 66427 1fnc 314 3.18e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1hbkA 94 3.19e+01 1aca a.11.1.1 60887 1ihrA 76 3.21e+01 1ihrA d.212.1.2 62392 1qcxA 359 3.22e+01 1qcxA b.80.1.2 28028 1utcA 363 3.23e+01 a.118.1.4 -1568 b.69.6.1 -4612 1amuA 563 3.23e+01 1amuA e.23.1.1 43351 1gqnA 252 3.44e+01 c.1.10.1 -5494 1qpsA 261 3.44e+01 1ckqA c.52.1.1 33234 1oruA 195 3.49e+01 unknown_sccs -4390 1nxmA 197 3.51e+01 b.82.1.1 86385 1n0qA 93 3.51e+01 k.37.1.1 79754 1okrA 123 3.55e+01 unknown_sccs -235 1kb9B 352 3.57e+01 d.185.1.1 77313 d.185.1.1 77314 1b56 135 3.63e+01 1hmt b.60.1.2 27183 1awo 62 3.66e+01 1bbzA b.34.2.1 24482 1vcbA 118 3.68e+01 1vcbA d.15.1.1 37603 1tx4A 198 3.73e+01 1tx4A a.116.1.1 19098 1fr3A 67 3.74e+01 1fr3A b.40.6.1 25436 1i3dA 146 3.75e+01 a.1.1.2 61587 1irdA 141 3.77e+01 a.1.1.2 66286 1iwhA 141 3.78e+01 a.1.1.2 76882 1a76 326 3.86e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1kypA 237 3.90e+01 d.22.1.1 73280 1uufA 369 3.90e+01 b.35.1.2 -3706 c.2.1.1 -5730 1ojhA 65 3.91e+01 2let 28 3.91e+01 g.3.2.1 44072 1plq 258 3.92e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1d6aB 262 4.00e+01 1qi7A d.165.1.1 42198