# 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 1.15e-01 a.8.3.3,c.6.2.4 99329,99330 1sz2A 332 1.36e-01 1q18A 332 2.71e-01 c.55.1.7,c.55.1.7 104470,104471 1tbmA 326 3.61e-01 a.211.1.2 106744 2fiyA 309 4.42e-01 1jpaA 312 5.92e-01 d.144.1.7 67011 1ad3A 452 6.97e-01 1ad3A c.82.1.1 35335 1vj5A 555 7.02e-01 c.108.1.2,c.69.1.11 100799,100800 1jhgA 101 8.61e-01 1jhgA a.4.12.1 19009 1w1oA 534 1.52e+00 d.58.32.4,d.145.1.1 109071,109072 1jb0I 38 1.61e+00 1jb0I f.23.17.1 62826 1h6zA 913 1.96e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1kblA 873 2.24e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1zd3A 555 2.30e+00 1ihp 438 2.37e+00 1ihp c.60.1.2 33993 1y3nA 490 3.01e+00 2gdjA 264 3.03e+00 1zv1A 65 3.73e+00 1z2nX 324 3.89e+00 2fpmA 322 4.18e+00 1ewfA 456 4.36e+00 1bp1 d.83.1.1,d.83.1.1 40024,40025 2b7aA 293 4.89e+00 1n2fA 142 5.11e+00 d.227.1.1 79853 1fsu 492 5.53e+00 1auk c.76.1.2 35032 1cojA 212 5.57e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 1jmtB 28 5.64e+00 1zboA 210 5.89e+00 2afwA 329 6.65e+00 1hdiA 413 7.52e+00 16pk c.86.1.1 60964 1x91A 153 7.63e+00 2fmcA 82 7.70e+00 1jk8B 190 7.81e+00 1iakB b.1.1.2,d.19.1.1 63147,63148 1q4mA 221 7.99e+00 a.132.1.3 95805 1dik 874 8.04e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1t4gA 322 8.24e+00 a.60.4.1,c.37.1.11 106418,106419 1bd8 156 8.36e+00 1bd8 d.211.1.1 19157 1v1rA 400 8.39e+00 c.36.1.11 108272 1qfxA 460 8.39e+00 1qfxA c.60.1.2 33994 2aclB 244 8.89e+00 1sqgA 429 8.97e+00 a.79.1.3,c.66.1.38 105912,105913 2b05A 246 9.23e+00 2f2gA 221 9.30e+00 2aheA 267 1.01e+01 1jmxA 494 1.08e+01 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 1tqxA 227 1.09e+01 1m93B 245 1.11e+01 1rkd 309 1.12e+01 1rkd c.72.1.1 34928 2gsfA 373 1.13e+01 2c5rA 67 1.14e+01 1iuhA 198 1.17e+01 d.61.1.2 83711 1yzxA 226 1.20e+01 1pa7A 130 1.20e+01 a.40.1.1 94410 1bf5A 545 1.26e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1whrA 124 1.28e+01 1x6iA 91 1.28e+01 1p4cA 380 1.33e+01 c.1.4.1 94100 2fikA 287 1.41e+01 1kpsB 171 1.41e+01 a.118.12.1 68787 1h2vC 771 1.43e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1sszA 34 1.44e+01 j.35.1.1 105999 1zhcA 76 1.45e+01 1tzvA 142 1.47e+01 a.79.1.1 107526 1z5lA 285 1.52e+01 1z6uA 150 1.52e+01 1azsB 212 1.53e+01 1azsA d.58.29.1 39423 1aq0A 306 1.55e+01 1aq0A c.1.8.3 28842 1xioA 261 1.55e+01 2akrA 285 1.59e+01 2ctoA 93 1.59e+01 1vgmA 378 1.65e+01 2cygA 312 1.74e+01 1f0cA 305 1.77e+01 1c8oA e.1.1.1 42676 1ab8A 220 1.79e+01 1azsA d.58.29.1 39414 1hfeL 421 1.81e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1qd9A 124 1.81e+01 1qu9A d.79.1.1 39758 1wjgA 137 1.84e+01 1yy7A 213 1.86e+01 1d8wA 426 1.87e+01 1de5A c.1.15.2 29394 1im5A 180 1.87e+01 c.33.1.3 66211 1x1fA 149 1.89e+01 6gsvA 217 1.91e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 2ccmA 191 1.91e+01 2bnkA 67 1.92e+01 1m6jA 261 1.97e+01 c.1.1.1 78693 1zq9A 285 1.97e+01 1s7jA 262 2.02e+01 d.21.1.2 98647 1i9gA 280 2.06e+01 c.66.1.13 62090 1m2kA 249 2.11e+01 c.31.1.5 84754 1bh9B 89 2.12e+01 1bh9B a.22.1.3 16485 1l1jA 239 2.17e+01 b.47.1.1 84516 1kf6D 119 2.20e+01 f.21.2.2 72400 1x74A 360 2.21e+01 2esnA 310 2.25e+01 1sphA 88 2.25e+01 1ptf d.94.1.1 40544 1sheA 103 2.26e+01 d.274.1.1 105551 1wmmA 145 2.26e+01 1jhdA 396 2.28e+01 b.122.1.3,c.26.1.5 66712,66713 1r4wA 226 2.32e+01 c.47.1.13 97050 1mzbA 136 2.33e+01 a.4.5.42 91497 2fqmA 75 2.33e+01 1adjA 421 2.39e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1tkeA 224 2.59e+01 2bemA 170 2.62e+01 1z2uA 150 2.66e+01 1h4vB 421 2.73e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1fpoA 171 2.81e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1r5qA 102 2.81e+01 a.186.1.1 97103 1g7oA 215 2.88e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 2b1eA 564 2.89e+01 1zejA 293 2.92e+01 1w36C 1122 2.98e+01 1bkcI 256 2.99e+01 1bkcA d.92.1.10 40334 1ohfA 644 3.03e+01 b.121.4.8 93014 2c4jA 218 3.06e+01 2ddfA 257 3.07e+01 1guxA 218 3.12e+01 1guxA a.74.1.3 18388 2iu5A 195 3.20e+01 1w07A 659 3.23e+01 1zkeA 83 3.25e+01 1h99A 224 3.26e+01 a.142.1.1,a.142.1.1 60814,60815 1thg 544 3.28e+01 1thg c.69.1.17 34763 1qycA 308 3.28e+01 c.2.1.2 96581 1mun 225 3.42e+01 1mun a.96.1.2 18744 1zxcA 263 3.60e+01 2br9A 234 3.65e+01 1hp5A 512 3.69e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1vls 146 3.71e+01 1vls a.24.2.1 16532 2czrA 226 3.94e+01 1zy9A 564 3.94e+01 1x7yA 400 3.95e+01 1jakA 512 4.01e+01 c.1.8.6,d.92.2.1 66472,66473 1alvA 173 4.02e+01 1alvA a.39.1.8 17370 1m3uA 264 4.04e+01 c.1.12.8 84784 1ka9H 200 4.07e+01 c.23.16.1 77308 2fb6A 117 4.07e+01 1ssqA 267 4.08e+01 b.81.1.6 105993 1olsA 400 4.13e+01 c.36.1.11 93331 2fgtA 417 4.16e+01 1xmeA 568 4.20e+01 1pn0A 665 4.20e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1qu9A 128 4.30e+01 1qu9A d.79.1.1 39755 1nd7A 374 4.35e+01 d.148.1.1 91817 1qh4A 380 4.36e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1x23A 155 4.37e+01 1o9wA 177 4.37e+01 b.2.3.5 86713 1xfjA 261 4.44e+01 d.194.1.2 109585 1n1jA 93 4.52e+01 a.22.1.3 79813 1zbfA 142 4.52e+01 2gwgA 350 4.56e+01 1jae 471 4.57e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1t9kA 347 4.63e+01 c.124.1.5 106721 2a9iA 113 4.65e+01 1h2sA 225 4.65e+01 f.13.1.1 76578 2givA 295 4.68e+01 1xw5A 217 4.70e+01 1rzsA 61 4.72e+01 a.35.1.2 105139 1apyA 162 4.75e+01 1apyA d.153.1.5 42004 1yozA 116 4.77e+01 1gjjA 168 4.81e+01 a.140.1.1,a.140.1.1 83291,83292 1l0iA 78 4.84e+01 a.28.1.1 77643 2ewcA 126 4.88e+01 1hu4A 288 4.89e+01 1hu4A 2ezh 75 4.98e+01 2ezh a.4.1.2 16029 1n5dA 288 4.98e+01 c.2.1.2 80030 2fkzA 155 4.99e+01 1bkcE 256 5.06e+01 1bkcA d.92.1.10 40333 1qahA 136 5.20e+01 d.79.1.1 96338 2bt2A 161 5.23e+01 1wr7A 41 5.25e+01 1j30A 144 5.27e+01 a.25.1.1 90806 2furA 209 5.28e+01 2fupA 168 5.34e+01 2f96A 224 5.35e+01 1w85A 368 5.44e+01 1okjA 251 5.45e+01 c.55.1.9,c.55.1.9 103998,103999 3inkC 133 5.48e+01 3inkC a.26.1.2 16881 1lghA 56 5.49e+01 1lghA f.3.1.1 43733 1t8kA 77 5.54e+01 a.28.1.1 106666 1b74A 254 5.54e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1j8yF 297 5.61e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2bfdA 400 5.90e+01 1x4tA 92 5.91e+01 1tzpA 255 5.94e+01 d.65.1.3 107520 1m98A 317 5.99e+01 a.175.1.1,d.17.4.6 78866,78867 1h3nA 878 6.12e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1jgjA 217 6.18e+01 1c3wA f.13.1.1 62952 1x6vA 630 6.20e+01 1fehA 574 6.26e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1ux5A 411 6.28e+01 a.207.1.1 100144 4hb1 108 6.32e+01 4hb1 k.8.1.1 46414 2es9A 115 6.35e+01 1qfeA 252 6.36e+01 1qfeA c.1.10.1 29167 1f0jA 377 6.37e+01 1f0jA a.211.1.2 19346 1li5A 461 6.40e+01 a.27.1.1,c.26.1.1 73912,73913 1vjkA 98 6.49e+01 d.15.3.1 108631 1fohA 664 6.52e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1tn6A 382 6.57e+01 2a5yB 549 6.64e+01 1mtyD 512 6.75e+01 1mhyD a.25.1.2 16742 2fk8A 318 6.76e+01 2b33A 140 6.78e+01 1mhyD 521 6.78e+01 1mhyD a.25.1.2 16780 2a2oA 258 6.84e+01 1d5rA 324 6.85e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 2a2mA 258 6.91e+01 1qtnB 95 6.92e+01 1pauB 4ubpC 570 6.94e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1pgjA 478 6.98e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 2f2mA 113 7.07e+01 1t8sA 484 7.07e+01 c.56.2.1 106679 1vpqA 273 7.14e+01 1ylxA 103 7.17e+01 1g8fA 511 7.24e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1hlvA 131 7.27e+01 a.4.1.7,a.4.1.7 65854,65855 1ni3A 392 7.33e+01 c.37.1.8,d.15.10.2 80531,80532 1li5B 461 7.34e+01 a.27.1.1,c.26.1.1 73914,73915 1im8A 244 7.43e+01 c.66.1.14 66212 1j8mF 297 7.45e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1jy2N 53 7.46e+01 h.1.8.1 67440 1sf8A 126 7.47e+01 d.271.1.1 105472 1wod 233 7.49e+01 1wod c.94.1.1 35832 2fu4A 83 7.51e+01 1amf 233 7.54e+01 1wod c.94.1.1 35833 2cwyA 94 7.54e+01 2gsvA 80 7.56e+01 1iujA 106 7.59e+01 d.58.4.5 90701 1z83A 196 7.66e+01 2mtaC 147 7.71e+01 2mtaC a.3.1.1 15908 2bjqA 345 7.75e+01 1fzqA 181 7.79e+01 1hurA c.37.1.8 32060 1geeA 261 7.80e+01 c.2.1.2 90509 2azeA 155 7.80e+01 1gcoA 261 7.81e+01 1ybvA c.2.1.2 29884 2f8mA 244 7.83e+01 1uwdA 103 7.88e+01 1gwuA 309 7.88e+01 a.93.1.1 83351 1t6uA 117 7.88e+01 a.24.22.1 106584 1e9xA 455 7.89e+01 1ea1A a.104.1.1 18969 1u13A 455 7.94e+01 a.104.1.1 107578 2bc4B 211 8.18e+01 1kay 381 8.21e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1bupA 386 8.24e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1e3pA 757 8.25e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1p2fA 220 8.28e+01 a.4.6.1,c.23.1.1 87720,87721 1y2kA 349 8.32e+01 1s5lX 50 8.35e+01 2cglA 489 8.39e+01 1yz7A 188 8.40e+01 1n3gA 113 8.45e+01 d.204.1.1 79962 1gqnA 252 8.46e+01 c.1.10.1 90514 1vjeA 166 8.52e+01 d.185.1.2 100807 1d8dA 377 8.54e+01 1ft1A a.118.6.1 19185 1eemA 241 8.56e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1h5zA 455 8.58e+01 a.104.1.1 90622 1x8vA 455 8.58e+01 1j6rA 214 8.60e+01 d.173.1.2 71598 1ln4A 104 8.62e+01 d.68.4.1 74043 1hn0A 1021 8.66e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1no1A 126 8.71e+01 a.179.1.1 85913 1y5iC 225 8.72e+01 1c4kA 730 8.72e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1p9aG 290 8.76e+01 c.10.2.7 87990 2cpgA 45 8.82e+01 2cpgA a.43.1.3 17455 1r6wA 322 8.91e+01 c.1.11.2,d.54.1.1 97165,97166 2ashA 381 8.92e+01 1dbwA 126 8.95e+01 1dbwA c.23.1.1 31095