# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1z6oM 191 6.13e-01 2fha 183 1.31e+00 2fha a.25.1.1 16674 1fha 183 1.32e+00 2fha a.25.1.1 16675 1xm9A 457 3.60e+00 2gsfA 373 3.71e+00 1bax 94 3.75e+00 1bax a.61.1.3 18133 1bgc 174 4.10e+00 1bgc a.26.1.1 16822 2aexA 346 4.79e+00 1bgeB 175 5.36e+00 1bgc a.26.1.1 16824 1tk1A 260 5.54e+00 d.248.1.1 107066 1zzgA 415 6.19e+00 1bgeA 175 6.53e+00 1bgc a.26.1.1 16823 1qc7A 101 6.55e+00 1qc7A a.118.14.1 18456 1pi1A 185 7.51e+00 a.29.7.1 94699 1fmk 452 7.63e+00 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1rthA 560 8.63e+00 1rthA c.55.3.1,e.8.1.2 33576,43028 1ypxA 375 8.65e+00 1kv9A 668 1.00e+01 a.3.1.6,b.70.1.1 73056,73057 2g2dA 193 1.02e+01 1vrtA 560 1.04e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1t7pA 698 1.05e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1r7mA 235 1.10e+01 1dttA 560 1.10e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 1c1bB 440 1.24e+01 1rthA e.8.1.2 43077 1x9mA 698 1.25e+01 1ev7B 317 1.27e+01 1ev7B c.52.1.9 33316 1akaA 401 1.41e+01 1ajsA c.67.1.1 34258 1bqnB 430 1.50e+01 1rthA e.8.1.2 43065 1tvoA 368 1.52e+01 1ev7A 317 1.56e+01 1ev7B c.52.1.9 33315 1j1bA 420 1.57e+01 d.144.1.7 90758 1yovA 537 1.58e+01 3ygsP 97 1.61e+01 3ygsP a.77.1.3 18435 1nu7D 282 1.63e+01 a.8.6.1,a.8.6.1 92191,92192 2aucA 126 1.66e+01 1q41A 424 1.74e+01 d.144.1.7 95774 2a1dD 329 1.76e+01 1wy7A 207 1.78e+01 1fk9A 543 1.78e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 1bg7 176 1.86e+01 2fha a.25.1.1 16686 1ju2A 536 1.99e+01 c.3.1.2,d.16.1.1 77169,77170 1r03A 182 2.01e+01 a.25.1.1 104675 1gx1A 160 2.09e+01 d.79.5.1 70675 1jpaA 312 2.13e+01 d.144.1.7 67011 1e4iA 447 2.13e+01 1e70M c.1.8.4 59225 1tazA 365 2.14e+01 a.211.1.2 106734 1jdc 429 2.19e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 1sumB 235 2.23e+01 a.7.12.1 106025 1j1iA 296 2.36e+01 c.69.1.10 83977 1v4aA 440 2.46e+01 a.24.16.4,d.218.1.9 108350,108351 1eetA 557 2.56e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 1tr1A 447 2.56e+01 1e70M c.1.8.4 28957 1fkoA 543 2.57e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 2as9A 210 2.57e+01 1jgcA 161 2.59e+01 a.25.1.1 66673 7aatA 401 2.62e+01 1ajsA c.67.1.1 34250 1d8iA 311 2.64e+01 1d8iA d.63.1.1 39541 3ladA 476 2.68e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1hniB 427 2.73e+01 1rthA e.8.1.2 43045 1aijL 281 2.75e+01 6prcL f.26.1.1 43461 1iawA 317 2.75e+01 c.52.1.9 62126 2awiA 317 2.75e+01 4lbd 267 2.83e+01 2lbd a.123.1.1 19289 2iugA 120 2.86e+01 1us8A 147 2.87e+01 c.37.1.12 99859 1a5z 319 2.88e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1ji8A 111 2.90e+01 d.203.1.1 66733 1oo0A 147 3.00e+01 d.232.1.1 87182 1d8hA 311 3.14e+01 1d8iA d.63.1.1 39544 1l5jA 865 3.25e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1h96A 182 3.27e+01 2fha a.25.1.1 60811 2gyqA 175 3.30e+01 1rzhL 281 3.30e+01 f.26.1.1 98164 1hyeA 313 3.32e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1dloB 427 3.52e+01 1rthA e.8.1.2 43041 1dbdA 100 3.53e+01 2bopA d.58.8.1 39218 1bqnA 558 3.55e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1iujA 106 3.63e+01 d.58.4.5 90701 1bk5A 422 3.78e+01 1bk5A a.118.1.1 19130 1lea 84 3.82e+01 1lea a.4.5.2 16085 1tzvA 142 3.83e+01 a.79.1.1 107526 1cqmA 101 3.84e+01 1ris d.58.14.1 39321 1kkhA 317 3.94e+01 d.14.1.5,d.58.26.3 72645,72646 1zhvA 134 3.99e+01 1tjoA 182 4.03e+01 1pszA 303 4.05e+01 1toaA c.92.2.2 35600 1aew 174 4.09e+01 2fha a.25.1.1 16676 1woyA 500 4.11e+01 1cwwA 102 4.17e+01 1cy5A a.77.1.3 18434 2bopA 85 4.18e+01 2bopA d.58.8.1 39217 1uedA 406 4.21e+01 a.104.1.1 99256 1ho8A 480 4.21e+01 1ho8A a.118.1.9 61107 5ldh 334 4.37e+01 3ldh c.2.1.5,d.162.1.1 30158,42125 1k6kA 143 4.41e+01 a.174.1.1 77274 2hmiA 558 4.43e+01 1rthA c.55.3.1,e.8.1.2 33604,43106 1jqhA 308 4.45e+01 d.144.1.7 71793 1gcyA 527 4.48e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 2fu4A 83 4.51e+01 1bk6A 422 4.52e+01 1bk5A a.118.1.1 19133 1lkvX 232 4.70e+01 a.118.14.1 73980 1b6g 310 4.73e+01 1b6g c.69.1.8 34661 1j8fA 323 4.77e+01 1j8fA c.31.1.5 62738 1h8eA 510 4.84e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1q1aA 289 4.87e+01 c.31.1.5 95561 1mojA 182 4.96e+01 a.25.1.1 91367 2amg 415 4.99e+01 1jdc b.71.1.1,c.1.8.1 27796,28783 1rypB 250 5.16e+01 1rypB d.153.1.4 41933 1rcd 173 5.16e+01 2fha a.25.1.1 16687 2iu4A 336 5.22e+01 1v7zA 260 5.30e+01 c.125.1.1 100488 1ris 101 5.32e+01 1ris d.58.14.1 39314 1tbbA 332 5.37e+01 a.211.1.2 106741 1gz0A 253 5.39e+01 c.116.1.1,d.79.3.3 76391,76392 1v2dA 381 5.46e+01 c.67.1.1 108281 1ee4A 423 5.62e+01 1ee4A a.118.1.1 19128 1eetB 427 5.65e+01 1rthA e.8.1.2 43079 1ciy 590 5.67e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1hniA 558 5.77e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 9ldtA 332 5.83e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1pf5A 131 5.92e+01 d.79.1.1 94604 1t8qA 336 5.92e+01 c.1.18.3 106669 1myf 153 5.95e+01 1a6m a.1.1.2 15147 1m6nA 802 6.00e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 2bo4A 397 6.01e+01 1q3kA 259 6.11e+01 c.125.1.1 95693 1wa5B 530 6.13e+01 1jy8A 159 6.14e+01 d.79.5.1 67452 1hmvA 560 6.16e+01 1rthA c.55.3.1,e.8.1.2 33587,43046 1aorA 605 6.28e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1f37A 110 6.29e+01 1f37A c.47.1.11 33088 1ede 310 6.36e+01 1b6g c.69.1.8 34662 2c3nA 247 6.38e+01 1dloA 556 6.39e+01 1rthA c.55.3.1,e.8.1.2 33584,43040 1zmdA 474 6.43e+01 1jigA 146 6.77e+01 a.25.1.1 71685 1t5oA 351 6.91e+01 c.124.1.5 106459 1a8h 500 7.02e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1lb3A 182 7.34e+01 a.25.1.1 77873 3erk 364 7.39e+01 1hcl d.144.1.7 41654 1iw8A 231 7.46e+01 a.111.1.1 76866 1sek 378 7.65e+01 1sek e.1.1.1 42675 1e79A 510 7.74e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1q45A 391 7.82e+01 c.1.4.1 95780 2lbd 267 8.06e+01 2lbd a.123.1.1 19287 1cnt1 187 8.19e+01 1cnt3 2gjlA 328 8.19e+01 1qgjA 300 8.34e+01 1bgp a.93.1.1 18691 1p4oA 322 8.47e+01 d.144.1.7 87775 1ka6A 128 8.56e+01 d.93.1.1 68370 1bmfA 510 8.58e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18281,26446,32326 1f7uA 607 8.58e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1odzA 386 8.78e+01 c.1.8.3 86889 1qsdA 106 8.87e+01 1qsdA a.7.5.1 16335 2ex4A 241 8.87e+01 1txvA 452 8.89e+01 1d2tA 231 8.89e+01 1d2tA a.111.1.1 19052 1qghA 156 8.92e+01 1qghA a.25.1.1 16728 1kxpD 458 8.93e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1vloA 381 8.94e+01 b.44.2.1,d.250.1.1 108838,108839