# List of top-scoring protein chains for t06-100-30-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 1.80e-01 1jpaA 312 5.96e-01 d.144.1.7 67011 2fiyA 309 1.05e+00 2c4jA 218 1.19e+00 1jhgA 101 1.68e+00 1jhgA a.4.12.1 19009 1mzbA 136 1.71e+00 a.4.5.42 91497 2iu5A 195 1.73e+00 1qwoA 442 1.94e+00 c.60.1.2 104620 2fu4A 83 1.99e+00 1zv1A 65 2.02e+00 1b4pA 217 2.31e+00 a.45.1.1,c.47.1.5 83158,83159 2gsvA 80 2.51e+00 1zejA 293 2.63e+00 1zd3A 555 2.73e+00 1zboA 210 2.91e+00 1qfxA 460 3.02e+00 1qfxA c.60.1.2 33994 1eemA 241 3.39e+00 1eemA a.45.1.1,c.47.1.5 17717,33011 1kpsB 171 4.55e+00 a.118.12.1 68787 1bd8 156 4.59e+00 1bd8 d.211.1.1 19157 1jk8B 190 4.71e+00 1iakB b.1.1.2,d.19.1.1 63147,63148 1k6iA 352 6.80e+00 c.2.1.2 68223 1es5A 262 7.69e+00 1skf e.3.1.1 42679 1xo0A 324 8.19e+00 1ohfA 644 9.17e+00 b.121.4.8 93014 1w1oA 534 9.57e+00 d.58.32.4,d.145.1.1 109071,109072 1im5A 180 1.03e+01 c.33.1.3 66211 1sqgA 429 1.08e+01 a.79.1.3,c.66.1.38 105912,105913 1kblA 873 1.21e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1okcA 297 1.24e+01 f.42.1.1 93248 2g62A 325 1.32e+01 1ewfA 456 1.33e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1ufaA 520 1.34e+01 a.8.3.3,c.6.2.4 99329,99330 1vls 146 1.35e+01 1vls a.24.2.1 16532 2a9iA 113 1.39e+01 2aheA 267 1.46e+01 1zq9A 285 1.52e+01 1mun 225 1.55e+01 1mun a.96.1.2 18744 1n8vA 112 1.56e+01 a.118.21.1 85457 1jb0I 38 1.56e+01 1jb0I f.23.17.1 62826 1tzvA 142 1.56e+01 a.79.1.1 107526 1xrsA 516 1.57e+01 1fg7A 356 1.57e+01 1gewA c.67.1.1 59819 1iqrA 420 1.63e+01 a.99.1.1,c.28.1.1 66275,66276 1o5hA 214 1.69e+01 a.191.1.1 92497 1v4aA 440 1.70e+01 a.24.16.4,d.218.1.9 108350,108351 1jakA 512 1.72e+01 c.1.8.6,d.92.2.1 66472,66473 1vlbA 907 1.75e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2g7gA 213 1.76e+01 1dbwA 126 1.84e+01 1dbwA c.23.1.1 31095 1hs6A 611 1.87e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1p4cA 380 1.91e+01 c.1.4.1 94100 2furA 209 1.92e+01 1sszA 34 1.94e+01 j.35.1.1 105999 1fpoA 171 2.01e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1x6vA 630 2.02e+01 1iqcA 308 2.09e+01 a.3.1.5,a.3.1.5 66266,66267 2b7aA 293 2.10e+01 1xgkA 352 2.14e+01 2gsfA 373 2.21e+01 1alvA 173 2.21e+01 1alvA a.39.1.8 17370 1no1A 126 2.29e+01 a.179.1.1 85913 1yozA 116 2.32e+01 1w07A 659 2.48e+01 1rh9A 373 2.56e+01 2esnA 310 2.66e+01 1z2nX 324 2.69e+01 1gjwA 637 2.77e+01 b.71.1.1,c.1.8.1 60582,60583 2fqmA 75 2.83e+01 2afwA 329 2.83e+01 1m6kA 251 2.85e+01 e.3.1.1 78695 1im8A 244 2.92e+01 c.66.1.14 66212 1nw3A 416 2.98e+01 c.66.1.31 86288 1mp8A 281 3.02e+01 d.144.1.7 91384 1fzqA 181 3.04e+01 1hurA c.37.1.8 32060 1vi0A 206 3.06e+01 a.4.1.9,a.121.1.1 100720,100721 1ycsB 239 3.06e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 2afaA 425 3.07e+01 1hdiA 413 3.21e+01 16pk c.86.1.1 60964 1thg 544 3.22e+01 1thg c.69.1.17 34763 2fkzA 155 3.26e+01 1q6hA 224 3.26e+01 d.26.1.1 95975 1f7uA 607 3.28e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1q3eA 207 3.29e+01 b.82.3.2 95669 1q6uA 245 3.31e+01 d.26.1.1 95998 1ds1A 324 3.32e+01 1drtA b.82.2.2 28127 1k2xA 177 3.34e+01 d.153.1.5 90929 1z98A 281 3.34e+01 2gw6A 123 3.38e+01 2g6tA 306 3.45e+01 1t1uA 639 3.49e+01 1m98A 317 3.51e+01 a.175.1.1,d.17.4.6 78866,78867 1m2kA 249 3.53e+01 c.31.1.5 84754 1paqA 189 3.56e+01 a.118.1.14 94413 1v2dA 381 3.59e+01 c.67.1.1 108281 1rzhL 281 3.63e+01 f.26.1.1 98164 1gcqC 70 3.65e+01 1gcpA b.34.2.1 60436 1d6gA 47 3.66e+01 1d6gA g.33.1.1 44976 1rkd 309 3.70e+01 1rkd c.72.1.1 34928 1opjA 293 3.73e+01 d.144.1.7 87230 2afdA 88 3.73e+01 2gdjA 264 3.74e+01 1aj8A 371 3.79e+01 1aj8A a.103.1.1 18900 1jhdA 396 3.81e+01 b.122.1.3,c.26.1.5 66712,66713 2bbrA 195 3.83e+01 1sheA 103 3.86e+01 d.274.1.1 105551 1ytaA 180 3.90e+01 1tkeA 224 3.97e+01 1whrA 124 4.00e+01 1j1vA 94 4.09e+01 a.4.12.2 83981 2c5rA 67 4.10e+01 1r6wA 322 4.23e+01 c.1.11.2,d.54.1.1 97165,97166 2f2gA 221 4.24e+01 2c2nA 339 4.29e+01 1j8mF 297 4.30e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1n1jA 93 4.30e+01 a.22.1.3 79813 2c78A 405 4.31e+01 1qo7A 394 4.31e+01 1qo7A c.69.1.11 34697 2fupA 168 4.33e+01 1knyA 253 4.34e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1tueA 212 4.35e+01 c.37.1.20 107323 1repC 251 4.37e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1h2sA 225 4.38e+01 f.13.1.1 76578 2cchB 260 4.39e+01 1yy7A 213 4.45e+01 1s6lA 212 4.50e+01 1jae 471 4.53e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1tn6B 437 4.53e+01 1jmtB 28 4.53e+01 1m65A 245 4.60e+01 c.6.3.1 84847 1uvqB 198 4.61e+01 b.1.1.2,d.19.1.1 100064,100065 1gwuA 309 4.72e+01 a.93.1.1 83351 1pn0A 665 4.72e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1pa7A 130 4.75e+01 a.40.1.1 94410 2grrB 170 4.80e+01 1hf8A 289 4.82e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1z2uA 150 4.87e+01 1x6oA 174 4.97e+01 b.34.5.2,b.40.4.5 109493,109494 1li5A 461 4.97e+01 a.27.1.1,c.26.1.1 73912,73913 1or7A 194 4.97e+01 a.4.13.2,a.177.1.1 87332,87333 2ccmA 191 4.99e+01 1gdeA 389 5.03e+01 c.67.1.1 60456 2ctoA 93 5.08e+01 1v9mA 323 5.11e+01 f.40.1.1 100543 1g5aA 628 5.14e+01 b.71.1.1,c.1.8.1 65152,65153 1n1fA 159 5.17e+01 a.26.1.3 79803 1tqyB 415 5.24e+01 c.95.1.1,c.95.1.1 107247,107248 1cojA 212 5.30e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1x91A 153 5.31e+01 1svvA 359 5.36e+01 c.67.1.1 106054 1uxtA 501 5.36e+01 c.82.1.1 108125 1ji7A 89 5.37e+01 a.60.1.1 71682 1yarA 233 5.42e+01 1xmeA 568 5.46e+01 1t92A 116 5.46e+01 1kf6D 119 5.51e+01 f.21.2.2 72400 1t7rA 269 5.51e+01 a.123.1.1 106635 1ssqA 267 5.56e+01 b.81.1.6 105993 1ux5A 411 5.59e+01 a.207.1.1 100144 1gweA 503 5.59e+01 e.5.1.1 70667 1mdl 359 5.61e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 2b1eA 564 5.62e+01 1b06A 210 5.63e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 2f7tA 227 5.71e+01 1lvaA 258 5.77e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1ufiA 64 5.82e+01 a.30.4.1 99336 1i9gA 280 5.85e+01 c.66.1.13 62090 1pw4A 451 5.86e+01 f.38.1.1 95198 1pa2A 306 5.90e+01 1bgp a.93.1.1 18693 1qd9A 124 5.91e+01 1qu9A d.79.1.1 39758 1rypB 250 5.94e+01 1rypB d.153.1.4 41933 1g291 372 6.03e+01 1g291 2fgtA 417 6.04e+01 1wmaA 276 6.07e+01 2cwyA 94 6.25e+01 1r0pA 312 6.28e+01 d.144.1.7 96734 1xl7A 612 6.28e+01 1ufzA 83 6.33e+01 a.5.9.1 107821 1wqwA 235 6.35e+01 1b8aA 438 6.37e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1rypH 205 6.44e+01 d.153.1.4 41876 1qwyA 291 6.47e+01 b.84.3.2 96509 2end 138 6.56e+01 2end a.18.1.1 16400 2fpmA 322 6.62e+01 2cz1A 206 6.71e+01 2givA 295 6.72e+01 2csgA 424 6.76e+01 2ddfA 257 6.79e+01 1dciA 275 6.80e+01 1dciA c.14.1.3 30918 1t7lA 766 6.89e+01 1sr2A 116 6.98e+01 1zkeA 83 7.03e+01 1e7uA 961 7.03e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2cqsA 842 7.06e+01 2fikA 287 7.14e+01 1nm8A 616 7.15e+01 c.43.1.3,c.43.1.3 85872,85873 1zbfA 142 7.16e+01 1x54A 434 7.21e+01 1pq1A 196 7.30e+01 f.1.4.1 94986 1ykhA 108 7.32e+01 1m93B 245 7.40e+01 1vkmA 297 7.40e+01 c.138.1.1 108670 1xrtA 467 7.44e+01 1e6iA 121 7.59e+01 1b91A a.29.2.1 16969 1lghA 56 7.60e+01 1lghA f.3.1.1 43733 1umgA 362 7.60e+01 d.280.1.1 107956 2cygA 312 7.65e+01 1wteA 272 7.73e+01 1vrtA 560 7.82e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1tu7A 208 7.83e+01 1t5oA 351 7.83e+01 c.124.1.5 106459 1c52 131 7.85e+01 1c52 a.3.1.1 15810 1hh8A 213 7.89e+01 1e96B a.118.8.1 61042 1x31D 99 7.99e+01 1hrkA 359 8.08e+01 1hrkA c.92.1.1 61228 1x74A 360 8.11e+01 1gqiA 708 8.25e+01 c.1.8.10,d.92.2.2 76279,76280 1n45A 233 8.25e+01 a.132.1.1 79981 2gwdA 449 8.43e+01 1vqoN 187 8.45e+01 1zhcA 76 8.50e+01 1gwiA 411 8.74e+01 a.104.1.1 76364 1uw4B 248 8.77e+01 a.118.1.14 100072 1vyiA 112 8.77e+01 1sq5A 308 8.85e+01 c.37.1.6 105882 1xioA 261 8.88e+01