# List of top-scoring protein chains for t04-100-30-str2-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 1sz2A 332 1.15e-01 1q18A 332 1.17e-01 c.55.1.7,c.55.1.7 104470,104471 1ihp 438 1.17e-01 1ihp c.60.1.2 33993 1tbmA 326 4.74e-01 a.211.1.2 106744 6gsvA 217 7.10e-01 1b8xA a.45.1.1,c.47.1.5 17633,32925 2c4jA 218 9.33e-01 1xw5A 217 1.30e+00 1jpaA 312 1.37e+00 d.144.1.7 67011 1zejA 293 1.56e+00 1mzbA 136 1.61e+00 a.4.5.42 91497 1jhgA 101 1.80e+00 1jhgA a.4.12.1 19009 1qwoA 442 1.91e+00 c.60.1.2 104620 1b4pA 217 1.96e+00 a.45.1.1,c.47.1.5 83158,83159 2fu4A 83 1.97e+00 2fiyA 309 2.00e+00 2iu5A 195 2.03e+00 1zv1A 65 2.36e+00 2gsvA 80 2.63e+00 1qfxA 460 3.15e+00 1qfxA c.60.1.2 33994 1eemA 241 3.26e+00 1eemA a.45.1.1,c.47.1.5 17717,33011 1hp5A 512 3.50e+00 1hp4A c.1.8.6,d.92.2.1 61113,61114 1zd3A 555 3.90e+00 1vj5A 555 4.10e+00 c.108.1.2,c.69.1.11 100799,100800 1jakA 512 4.30e+00 c.1.8.6,d.92.2.1 66472,66473 1zboA 210 4.91e+00 1bd8 156 4.99e+00 1bd8 d.211.1.1 19157 1jk8B 190 5.09e+00 1iakB b.1.1.2,d.19.1.1 63147,63148 1kpsB 171 5.77e+00 a.118.12.1 68787 1x1fA 149 6.14e+00 1esiA 262 7.02e+00 1skf e.3.1.1 42682 1es5A 262 7.04e+00 1skf e.3.1.1 42679 1y3nA 490 7.31e+00 1w1oA 534 8.79e+00 d.58.32.4,d.145.1.1 109071,109072 1gewA 356 9.80e+00 1gewA c.67.1.1 60470 1ufaA 520 1.03e+01 a.8.3.3,c.6.2.4 99329,99330 1ohfA 644 1.14e+01 b.121.4.8 93014 1fg7A 356 1.14e+01 1gewA c.67.1.1 59819 1fpoA 171 1.17e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1xo0A 324 1.31e+01 2esnA 310 1.34e+01 1nd7A 374 1.37e+01 d.148.1.1 91817 1h6zA 913 1.37e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1kblA 873 1.47e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 4crxA 322 1.47e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1vls 146 1.51e+01 1vls a.24.2.1 16532 1z98A 281 1.57e+01 1g7oA 215 1.60e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1okcA 297 1.62e+01 f.42.1.1 93248 1jb0I 38 1.75e+01 1jb0I f.23.17.1 62826 1im5A 180 1.76e+01 c.33.1.3 66211 1sszA 34 1.78e+01 j.35.1.1 105999 1tzvA 142 1.89e+01 a.79.1.1 107526 1v4aA 440 1.97e+01 a.24.16.4,d.218.1.9 108350,108351 2aheA 267 1.99e+01 1y5iC 225 2.05e+01 1sqgA 429 2.12e+01 a.79.1.3,c.66.1.38 105912,105913 1h2vC 771 2.12e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1fhuA 320 2.29e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1alvA 173 2.39e+01 1alvA a.39.1.8 17370 1zq9A 285 2.58e+01 2b7aA 293 2.66e+01 1x6vA 630 2.74e+01 1vi0A 206 2.77e+01 a.4.1.9,a.121.1.1 100720,100721 1z2nX 324 2.78e+01 1br1B 150 2.80e+01 1wdcC a.39.1.5 17309 1t1uA 639 2.84e+01 1no1A 126 2.87e+01 a.179.1.1 85913 1ewfA 456 2.90e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 2furA 209 2.96e+01 1yy7A 213 3.08e+01 1xgkA 352 3.11e+01 1yozA 116 3.12e+01 1mun 225 3.12e+01 1mun a.96.1.2 18744 2fqmA 75 3.20e+01 1n1jA 93 3.20e+01 a.22.1.3 79813 1gcqC 70 3.30e+01 1gcpA b.34.2.1 60436 1ad3A 452 3.40e+01 1ad3A c.82.1.1 35335 1z2uA 150 3.40e+01 1xrsA 516 3.42e+01 1dbwA 126 3.42e+01 1dbwA c.23.1.1 31095 2fkzA 155 3.43e+01 2bbrA 195 3.46e+01 1rh9A 373 3.50e+01 1ycsB 239 3.51e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 7atjA 308 3.51e+01 1bgp a.93.1.1 18673 2afwA 329 3.51e+01 1y1xA 191 3.52e+01 1x91A 153 3.63e+01 2afaA 425 3.66e+01 1m6kA 251 3.68e+01 e.3.1.1 78695 1p4cA 380 3.71e+01 c.1.4.1 94100 1vlbA 907 3.72e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1hlrA 907 3.74e+01 1fsu 492 3.74e+01 1auk c.76.1.2 35032 1repC 251 3.76e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1w07A 659 3.85e+01 1j1vA 94 3.86e+01 a.4.12.2 83981 1d6gA 47 3.88e+01 1d6gA g.33.1.1 44976 1tueA 212 3.94e+01 c.37.1.20 107323 2afdA 88 4.04e+01 1f44A 324 4.04e+01 a.60.9.1,d.163.1.1 64982,64983 2a9iA 113 4.06e+01 1g5aA 628 4.07e+01 b.71.1.1,c.1.8.1 65152,65153 1o5hA 214 4.11e+01 a.191.1.1 92497 1hdiA 413 4.22e+01 16pk c.86.1.1 60964 1f7uA 607 4.23e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1gdeA 389 4.36e+01 c.67.1.1 60456 2g62A 325 4.46e+01 1sheA 103 4.48e+01 d.274.1.1 105551 1e8yA 966 4.49e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 2gw6A 123 4.51e+01 1h2sA 225 4.53e+01 f.13.1.1 76578 1im8A 244 4.67e+01 c.66.1.14 66212 1n8vA 112 4.70e+01 a.118.21.1 85457 1hs6A 611 4.83e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1n3gA 113 4.84e+01 d.204.1.1 79962 2gdjA 264 4.88e+01 1hbzA 498 4.94e+01 1cf9A e.5.1.1 60937 1fzqA 181 5.02e+01 1hurA c.37.1.8 32060 1ha3A 405 5.04e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1qo7A 394 5.05e+01 1qo7A c.69.1.11 34697 1exmA 405 5.09e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2c2nA 339 5.13e+01 1jhdA 396 5.15e+01 b.122.1.3,c.26.1.5 66712,66713 1s6lA 212 5.20e+01 1jmtB 28 5.22e+01 1iqcA 308 5.25e+01 a.3.1.5,a.3.1.5 66266,66267 1ssqA 267 5.25e+01 b.81.1.6 105993 1x23A 155 5.27e+01 1ytaA 180 5.37e+01 1gwuA 309 5.39e+01 a.93.1.1 83351 1nw3A 416 5.40e+01 c.66.1.31 86288 1rzhL 281 5.42e+01 f.26.1.1 98164 2g7gA 213 5.46e+01 2occC 261 5.47e+01 1ocrC f.25.1.1 43520 1or7A 194 5.49e+01 a.4.13.2,a.177.1.1 87332,87333 1qd9A 124 5.55e+01 1qu9A d.79.1.1 39758 2f1sA 186 5.56e+01 1gweA 503 5.57e+01 e.5.1.1 70667 2c78A 405 5.57e+01 1mp8A 281 5.59e+01 d.144.1.7 91384 1q3eA 207 5.63e+01 b.82.3.2 95669 1b74A 254 5.66e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1m98A 317 5.66e+01 a.175.1.1,d.17.4.6 78866,78867 2cchB 260 5.81e+01 2gsfA 373 5.82e+01 1jgjA 217 5.82e+01 1c3wA f.13.1.1 62952 1r5zA 323 5.85e+01 f.40.1.1 97135 1bkcE 256 5.86e+01 1bkcA d.92.1.10 40333 2ddfA 257 5.86e+01 1thg 544 5.91e+01 1thg c.69.1.17 34763 1mw5A 187 5.92e+01 d.259.1.1 91477 1e7uA 961 5.94e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1zxcA 263 5.96e+01 1v9mA 323 6.00e+01 f.40.1.1 100543 1bkcI 256 6.02e+01 1bkcA d.92.1.10 40334 1ewqA 765 6.02e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 2csgA 424 6.05e+01 1uvqB 198 6.06e+01 b.1.1.2,d.19.1.1 100064,100065 1z6gA 218 6.08e+01 1r4wA 226 6.11e+01 c.47.1.13 97050 1tml 286 6.13e+01 1tml c.6.1.1 30656 1uk5A 111 6.15e+01 a.7.7.1 99487 1k2xA 177 6.16e+01 d.153.1.5 90929 1knyA 253 6.26e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1t7lA 766 6.26e+01 1j8mF 297 6.27e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1j8yF 297 6.32e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1i9gA 280 6.32e+01 c.66.1.13 62090 1xl7A 612 6.36e+01 2grrB 170 6.48e+01 1xioA 261 6.53e+01 1dciA 275 6.72e+01 1dciA c.14.1.3 30918 1whrA 124 6.76e+01 1cojA 212 6.80e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1tqyB 415 6.84e+01 c.95.1.1,c.95.1.1 107247,107248 1ux5A 411 6.89e+01 a.207.1.1 100144 1b06A 210 6.90e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 2g6tA 306 6.99e+01 2a2fX 325 7.08e+01 1v9jA 113 7.20e+01 d.52.6.1 100542 1jae 471 7.25e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1pn0A 665 7.26e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1qwyA 291 7.36e+01 b.84.3.2 96509 2cwyA 94 7.50e+01 1svvA 359 7.50e+01 c.67.1.1 106054 1ds1A 324 7.52e+01 1drtA b.82.2.2 28127 1t7rA 269 7.60e+01 a.123.1.1 106635 1gjwA 637 7.63e+01 b.71.1.1,c.1.8.1 60582,60583 1k6xA 352 7.64e+01 c.2.1.2 68238 1jvr 137 7.79e+01 1jvr a.61.1.2 18132 1hf8A 289 7.79e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1s7jA 262 7.95e+01 d.21.1.2 98647 1q6uA 245 7.96e+01 d.26.1.1 95998 1pgjA 478 7.96e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1hu4A 288 7.97e+01 1hu4A 1n5dA 288 7.97e+01 c.2.1.2 80030 1q6hA 224 7.99e+01 d.26.1.1 95975 1dik 874 8.00e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1n1fA 159 8.01e+01 a.26.1.3 79803 1vf6A 83 8.02e+01 a.194.1.1 100600 2c5rA 67 8.04e+01 1x74A 360 8.09e+01 1tkeA 224 8.15e+01 1aj8A 371 8.17e+01 1aj8A a.103.1.1 18900 1iqrA 420 8.17e+01 a.99.1.1,c.28.1.1 66275,66276 1vgmA 378 8.22e+01 1wqwA 235 8.24e+01 2cz1A 206 8.26e+01 1paqA 189 8.30e+01 a.118.1.14 94413 2b05A 246 8.35e+01 1v2dA 381 8.36e+01 c.67.1.1 108281 2f2gA 221 8.46e+01 1zrzA 364 8.56e+01 1wnlA 235 8.56e+01 1pq1A 196 8.60e+01 f.1.4.1 94986 1ykhA 108 8.64e+01 1y82A 157 8.67e+01 1n2fA 142 8.67e+01 d.227.1.1 79853 2b3oA 532 8.74e+01 2fikA 287 8.79e+01 1sq5A 308 8.80e+01 c.37.1.6 105882 2f7tA 227 8.90e+01 1q4mA 221 8.93e+01 a.132.1.3 95805 1ogsA 497 8.99e+01 b.71.1.2,c.1.8.3 86997,86998