# List of top-scoring protein chains for t04-100-30-bys-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 1ufaA 520 9.54e-02 a.8.3.3,c.6.2.4 99329,99330 1sz2A 332 1.67e-01 1tbmA 326 2.43e-01 a.211.1.2 106744 1q18A 332 3.43e-01 c.55.1.7,c.55.1.7 104470,104471 2fiyA 309 3.44e-01 1vj5A 555 5.71e-01 c.108.1.2,c.69.1.11 100799,100800 1ad3A 452 6.10e-01 1ad3A c.82.1.1 35335 1ihp 438 1.13e+00 1ihp c.60.1.2 33993 1jhgA 101 1.23e+00 1jhgA a.4.12.1 19009 1h6zA 913 1.34e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1jpaA 312 1.36e+00 d.144.1.7 67011 1jb0I 38 1.47e+00 1jb0I f.23.17.1 62826 1w1oA 534 1.54e+00 d.58.32.4,d.145.1.1 109071,109072 1kblA 873 1.73e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1zd3A 555 1.94e+00 1y3nA 490 2.17e+00 2b7aA 293 2.44e+00 2gdjA 264 2.98e+00 1n2fA 142 3.30e+00 d.227.1.1 79853 1ewfA 456 3.45e+00 1bp1 d.83.1.1,d.83.1.1 40024,40025 1z2nX 324 3.63e+00 1zv1A 65 3.79e+00 1bd8 156 4.03e+00 1bd8 d.211.1.1 19157 1fsu 492 4.05e+00 1auk c.76.1.2 35032 2fpmA 322 4.05e+00 1jmtB 28 4.89e+00 1qfxA 460 5.12e+00 1qfxA c.60.1.2 33994 1jmxA 494 5.24e+00 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1cojA 212 5.36e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 2afwA 329 5.68e+00 2fmcA 82 6.08e+00 1dik 874 6.24e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1hdiA 413 6.33e+00 16pk c.86.1.1 60964 1x91A 153 6.37e+00 1zboA 210 7.21e+00 6gsvA 217 7.28e+00 1b8xA a.45.1.1,c.47.1.5 17633,32925 1t4gA 322 7.39e+00 a.60.4.1,c.37.1.11 106418,106419 1rkd 309 7.86e+00 1rkd c.72.1.1 34928 1v1rA 400 8.10e+00 c.36.1.11 108272 2ccmA 191 8.70e+00 1p4cA 380 9.61e+00 c.1.4.1 94100 2b05A 246 9.95e+00 1aq0A 306 1.01e+01 1aq0A c.1.8.3 28842 1tqxA 227 1.02e+01 1sqgA 429 1.03e+01 a.79.1.3,c.66.1.38 105912,105913 1q4mA 221 1.04e+01 a.132.1.3 95805 2c5rA 67 1.06e+01 2cygA 312 1.09e+01 2aclB 244 1.10e+01 1m93B 245 1.10e+01 2aheA 267 1.11e+01 1d8wA 426 1.13e+01 1de5A c.1.15.2 29394 1sszA 34 1.14e+01 j.35.1.1 105999 1yzxA 226 1.15e+01 2ctoA 93 1.19e+01 1pa7A 130 1.20e+01 a.40.1.1 94410 2f2gA 221 1.22e+01 1iuhA 198 1.33e+01 d.61.1.2 83711 1bh9B 89 1.35e+01 1bh9B a.22.1.3 16485 1tzvA 142 1.40e+01 a.79.1.1 107526 1bf5A 545 1.45e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1hfeL 421 1.46e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1wjgA 137 1.46e+01 1whrA 124 1.50e+01 1xioA 261 1.52e+01 1jk8B 190 1.56e+01 1iakB b.1.1.2,d.19.1.1 63147,63148 1x74A 360 1.59e+01 1zq9A 285 1.59e+01 1m2kA 249 1.66e+01 c.31.1.5 84754 1zkeA 83 1.68e+01 1yy7A 213 1.69e+01 1x1fA 149 1.69e+01 1qd9A 124 1.69e+01 1qu9A d.79.1.1 39758 2esnA 310 1.70e+01 2bnkA 67 1.71e+01 1l1jA 239 1.74e+01 b.47.1.1 84516 1wmmA 145 1.74e+01 1r4wA 226 1.78e+01 c.47.1.13 97050 1geeA 261 1.80e+01 c.2.1.2 90509 1gcoA 261 1.80e+01 1ybvA c.2.1.2 29884 1f0cA 305 1.84e+01 1c8oA e.1.1.1 42676 1ni3A 392 1.87e+01 c.37.1.8,d.15.10.2 80531,80532 1x6iA 91 1.87e+01 1sphA 88 1.90e+01 1ptf d.94.1.1 40544 1tkeA 224 1.91e+01 1zhcA 76 1.93e+01 2c4jA 218 1.94e+01 1z2uA 150 1.94e+01 1kpsB 171 1.97e+01 a.118.12.1 68787 1jhdA 396 1.98e+01 b.122.1.3,c.26.1.5 66712,66713 1z6uA 150 1.99e+01 1im5A 180 2.04e+01 c.33.1.3 66211 1kf6D 119 2.12e+01 f.21.2.2 72400 1adjA 421 2.13e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1m6jA 261 2.15e+01 c.1.1.1 78693 1w07A 659 2.20e+01 2gsfA 373 2.23e+01 1i9gA 280 2.26e+01 c.66.1.13 62090 2fqmA 75 2.26e+01 2bemA 170 2.30e+01 2iu5A 195 2.32e+01 1h4vB 421 2.39e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1mzbA 136 2.42e+01 a.4.5.42 91497 1t92A 116 2.43e+01 1hp5A 512 2.49e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1zbfA 142 2.49e+01 1xfjA 261 2.49e+01 d.194.1.2 109585 1h2vC 771 2.51e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1n1jA 93 2.52e+01 a.22.1.3 79813 1m3uA 264 2.56e+01 c.1.12.8 84784 1zejA 293 2.65e+01 2fb6A 117 2.75e+01 1jakA 512 2.77e+01 c.1.8.6,d.92.2.1 66472,66473 2furA 209 2.83e+01 1thg 544 2.86e+01 1thg c.69.1.17 34763 1s7jA 262 2.89e+01 d.21.1.2 98647 1r5qA 102 2.96e+01 a.186.1.1 97103 1xw5A 217 3.02e+01 1w36C 1122 3.03e+01 1ka9H 200 3.10e+01 c.23.16.1 77308 1g7oA 215 3.10e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1vgmA 378 3.13e+01 1t8kA 77 3.15e+01 a.28.1.1 106666 2b1eA 564 3.21e+01 1h99A 224 3.21e+01 a.142.1.1,a.142.1.1 60814,60815 1l0iA 78 3.29e+01 a.28.1.1 77643 1xmeA 568 3.30e+01 2fgtA 417 3.34e+01 1qycA 308 3.40e+01 c.2.1.2 96581 1jae 471 3.44e+01 1smd b.71.1.1,c.1.8.1 27773,28760 2czrA 226 3.46e+01 1x23A 155 3.46e+01 2ewcA 126 3.56e+01 1qu9A 128 3.58e+01 1qu9A d.79.1.1 39755 2fikA 287 3.66e+01 1qh4A 380 3.67e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1ohfA 644 3.77e+01 b.121.4.8 93014 1x7yA 400 3.83e+01 1m98A 317 3.84e+01 a.175.1.1,d.17.4.6 78866,78867 1yozA 116 3.85e+01 1sheA 103 3.88e+01 d.274.1.1 105551 1jy2N 53 3.92e+01 h.1.8.1 67440 2givA 295 3.94e+01 1olsA 400 3.95e+01 c.36.1.11 93331 1b74A 254 4.02e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1lghA 56 4.06e+01 1lghA f.3.1.1 43733 1ytaA 180 4.10e+01 1i2aA 219 4.17e+01 e.24.1.1 90660 1fehA 574 4.24e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 2f96A 224 4.26e+01 3inkC 133 4.29e+01 3inkC a.26.1.2 16881 1apyA 162 4.32e+01 1apyA d.153.1.5 42004 2br9A 234 4.33e+01 1eemA 241 4.34e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1x6vA 630 4.37e+01 1x4tA 92 4.40e+01 1nd7A 374 4.42e+01 d.148.1.1 91817 1h2sA 225 4.43e+01 f.13.1.1 76578 1z5lA 285 4.46e+01 1qwoA 442 4.50e+01 c.60.1.2 104620 1xfsA 178 4.53e+01 d.129.3.5 109589 1mhyD 521 4.56e+01 1mhyD a.25.1.2 16780 1mun 225 4.57e+01 1mun a.96.1.2 18744 1li5A 461 4.58e+01 a.27.1.1,c.26.1.1 73912,73913 1rzsA 61 4.61e+01 a.35.1.2 105139 2gwgA 350 4.63e+01 2akrA 285 4.67e+01 2a7mA 250 4.69e+01 1w85A 368 4.73e+01 1j30A 144 4.79e+01 a.25.1.1 90806 1hlvA 131 4.83e+01 a.4.1.7,a.4.1.7 65854,65855 1o9wA 177 4.85e+01 b.2.3.5 86713 1qfeA 252 4.87e+01 1qfeA c.1.10.1 29167 2a3qA 170 4.94e+01 1zy9A 564 4.95e+01 1azsB 212 5.03e+01 1azsA d.58.29.1 39423 1li5B 461 5.05e+01 a.27.1.1,c.26.1.1 73914,73915 1okjA 251 5.06e+01 c.55.1.9,c.55.1.9 103998,103999 1g8fA 511 5.20e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1ab8A 220 5.22e+01 1azsA d.58.29.1 39414 2fkzA 155 5.26e+01 1gjjA 168 5.31e+01 a.140.1.1,a.140.1.1 83291,83292 2es9A 115 5.35e+01 1vpqA 273 5.35e+01 1qahA 136 5.36e+01 d.79.1.1 96338 2ezh 75 5.39e+01 2ezh a.4.1.2 16029 1h3nA 878 5.50e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1uwdA 103 5.52e+01 2a9iA 113 5.54e+01 1b8aA 438 5.54e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1j8yF 297 5.54e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1ux5A 411 5.56e+01 a.207.1.1 100144 1h7wA 1025 5.66e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 2bfdA 400 5.67e+01 2a2oA 258 5.70e+01 1z83A 196 5.73e+01 1hn0A 1021 5.73e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1gwuA 309 5.78e+01 a.93.1.1 83351 1jgjA 217 5.79e+01 1c3wA f.13.1.1 62952 1vls 146 5.80e+01 1vls a.24.2.1 16532 1pgjA 478 5.81e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1n8vA 112 5.82e+01 a.118.21.1 85457 2a2mA 258 5.84e+01 1im8A 244 5.88e+01 c.66.1.14 66212 4ubpC 570 5.94e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1wr7A 41 6.19e+01 2g3kA 94 6.20e+01 2gtqA 867 6.23e+01 1sf8A 126 6.27e+01 d.271.1.1 105472 1no1A 126 6.30e+01 a.179.1.1 85913 2fupA 168 6.33e+01 2cqsA 842 6.38e+01 2a5yB 549 6.41e+01 1vjkA 98 6.46e+01 d.15.3.1 108631 2b33A 140 6.47e+01 1ssqA 267 6.47e+01 b.81.1.6 105993 1pn0A 665 6.49e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 2mtaC 147 6.53e+01 2mtaC a.3.1.1 15908 1gqnA 252 6.54e+01 c.1.10.1 90514 1s5lX 50 6.65e+01 1wod 233 6.67e+01 1wod c.94.1.1 35832 1amf 233 6.68e+01 1wod c.94.1.1 35833 2bjqA 345 6.69e+01 1n3gA 113 6.69e+01 d.204.1.1 79962 1guxA 218 6.72e+01 1guxA a.74.1.3 18388 1tzpA 255 6.77e+01 d.65.1.3 107520 2g8yA 385 6.80e+01 1z5zA 271 6.81e+01 1fpoA 171 6.86e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2fywA 267 6.94e+01 1vp2A 208 6.94e+01 1p2fA 220 6.98e+01 a.4.6.1,c.23.1.1 87720,87721 1z6aA 500 7.13e+01 1vjeA 166 7.17e+01 d.185.1.2 100807 1mtyD 512 7.24e+01 1mhyD a.25.1.2 16742 1u3dA 509 7.31e+01 a.99.1.1,c.28.1.1 107638,107639 2f2mA 113 7.44e+01 1czpA 98 7.45e+01 1awd d.15.4.1 37645 1iujA 106 7.47e+01 d.58.4.5 90701 1bupA 386 7.53e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1r6wA 322 7.55e+01 c.1.11.2,d.54.1.1 97165,97166 1clvI 32 7.58e+01 1qfdA g.3.2.1 44075 1kay 381 7.64e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1xgkA 352 7.67e+01 1m6kA 251 7.69e+01 e.3.1.1 78695 1ylxA 103 7.69e+01 1qv1A 195 7.74e+01 a.39.1.5 96347 1ut7A 171 7.81e+01 b.143.1.1 99906 1yz7A 188 7.88e+01 1lvaA 258 7.89e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1bjt 793 7.90e+01 1bjt e.11.1.1 43249 1p3jA 217 7.91e+01 c.37.1.1,g.41.2.1 94022,94023 1j8mF 297 7.98e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2fu4A 83 7.99e+01 1hz4A 373 8.01e+01 a.118.8.2 65960 1sr2A 116 8.03e+01 1vbiA 344 8.13e+01 1v73A 342 8.23e+01 1z63A 500 8.26e+01 1f0jA 377 8.29e+01 1f0jA a.211.1.2 19346 1ln4A 104 8.31e+01 d.68.4.1 74043 1gteA 1025 8.42e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1jvr 137 8.51e+01 1jvr a.61.1.2 18132 1innA 166 8.53e+01 1j98A d.185.1.2 62608 2bc4B 211 8.59e+01 1xg5A 279 8.59e+01 1zc6A 305 8.71e+01 1xfiA 367 8.74e+01 e.50.1.1 109584 4hb1 108 8.75e+01 4hb1 k.8.1.1 46414 1a70 97 8.81e+01 1awd d.15.4.1 37678 7atjA 308 8.89e+01 1bgp a.93.1.1 18673 1dbwA 126 8.94e+01 1dbwA c.23.1.1 31095 2fk8A 318 8.97e+01