# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 2f22A 144 2.25e-09 1rxqA 178 1.91e-01 a.213.1.1 105118 1oxa 403 1.44e+00 1f4tA a.104.1.1 18965 2ccmA 191 1.46e+00 1eupA 403 2.08e+00 1rom a.104.1.1 18967 1z8oA 404 2.59e+00 1jipA 403 2.62e+00 a.104.1.1 66748 1pi1A 185 2.66e+00 a.29.7.1 94699 1bco 327 4.14e+00 1bco b.48.1.1,c.55.3.3 26431,33676 5eat 548 4.49e+00 5eat a.102.4.1,a.128.1.3 18853,19445 1zroA 602 4.75e+00 1ayl 541 4.81e+00 1ayl c.91.1.1,c.109.1.1 64718,64719 1bouB 302 5.48e+00 1bouB c.56.6.1 33859 1e5eA 404 5.56e+00 1ibjA c.67.1.3 59265 1b4uB 302 5.66e+00 1bouB c.56.6.1 33861 1sl8A 191 5.67e+00 1r2rA 248 5.73e+00 c.1.1.1 96875 1l3pA 102 6.05e+00 a.24.17.1 84520 1b79A 119 6.52e+00 1b79A a.81.1.1 18451 1allA 160 6.67e+00 1qgwC a.1.1.3 15647 1q1lA 401 7.01e+00 d.258.1.1 95591 1gwiA 411 7.24e+00 a.104.1.1 76364 1mioA 534 7.61e+00 1qguA c.92.2.3 35601 1exzA 141 7.79e+00 1exzA a.26.1.2 16877 2es7A 142 8.46e+00 1sknP 92 8.87e+00 1sknP a.37.1.1 17127 1f60B 94 9.87e+00 1b64 d.58.12.1 39307 1t8sA 484 1.01e+01 c.56.2.1 106679 1g7cB 94 1.15e+01 1b64 d.58.12.1 39308 1s4kA 120 1.17e+01 a.35.1.6 105254 1ithA 141 1.20e+01 1ithA a.1.1.2 15623 1gpjA 404 1.22e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2fh5A 185 1.31e+01 1i6lA 328 1.37e+01 c.26.1.1 66041 1t2bA 397 1.39e+01 1ylhA 560 1.41e+01 1k0mA 241 1.42e+01 a.45.1.1,c.47.1.5 67949,67950 1xiuA 230 1.47e+01 1ii2A 524 1.47e+01 c.91.1.1,c.109.1.1 66146,66147 1qwlA 505 1.53e+01 e.5.1.1 96483 1i6kA 328 1.53e+01 c.26.1.1 66040 1b06A 210 1.53e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1xwtA 405 1.57e+01 1m12A 84 1.57e+01 a.64.1.1 84745 1kq4A 232 1.58e+01 d.207.1.1 68791 2go7A 207 1.61e+01 1io7A 368 1.62e+01 1f4tA a.104.1.1 18971 1jweA 114 1.63e+01 1b79A a.81.1.1 18455 1tazA 365 1.70e+01 a.211.1.2 106734 1aw2A 256 1.73e+01 1amk c.1.1.1 28523 1lldA 319 1.78e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2g7sA 194 1.79e+01 1g5aA 628 1.82e+01 b.71.1.1,c.1.8.1 65152,65153 1uhkA 191 1.89e+01 1iw7C 1119 2.10e+01 e.29.1.1 71474 1g5cA 170 2.14e+01 1g5cA c.53.2.1 60264 1xw2A 405 2.18e+01 5eau 548 2.20e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1ej3A 191 2.27e+01 1ej3A a.39.1.5 17259 1rdr 461 2.30e+01 1rdr e.8.1.4 43116 1is1A 185 2.30e+01 d.67.3.1 83704 1ukfA 188 2.44e+01 d.3.1.10 99488 1d2rB 326 2.49e+01 1d2rB c.26.1.1 31573 1o26A 232 2.51e+01 d.207.1.1 86566 1vbuA 328 2.55e+01 1ajqA 209 2.57e+01 1ajqA d.153.1.2 41840 1h12A 405 2.64e+01 a.102.1.2 83447 1sumB 235 2.71e+01 a.7.12.1 106025 1zhhB 242 2.81e+01 1yz1A 174 2.81e+01 1oqcA 125 2.87e+01 a.24.15.1 87264 2gpiA 91 2.92e+01 1wuiL 534 2.92e+01 1ppjH 78 2.94e+01 f.28.1.1 104264 1syyA 346 2.98e+01 a.25.1.2 106126 1mzyA 333 3.09e+01 b.6.1.3,b.6.1.3 103848,103849 1mvcA 240 3.13e+01 a.123.1.1 79499 2ay1A 394 3.17e+01 1ajsA c.67.1.1 34357 1ubkL 534 3.21e+01 e.18.1.1 88422 1rypI 222 3.22e+01 d.153.1.4 41877 1nw3A 416 3.29e+01 c.66.1.31 86288 1aw1A 256 3.32e+01 1amk c.1.1.1 28515 2gz4A 207 3.40e+01 1w0bA 102 3.43e+01 a.7.11.1 108985 1tam 132 3.45e+01 1hiwA a.61.1.1 18128 1uaaA 673 3.54e+01 1pjr c.37.1.19,c.37.1.19 32401,32402 1przA 252 3.56e+01 d.265.1.3 95064 1a2xA 159 3.61e+01 1ncx a.39.1.5 17251 1nrlA 316 3.62e+01 a.123.1.1 92091 1klqA 197 3.67e+01 d.135.1.1 68689 1eiwA 111 3.81e+01 1eiwA c.23.3.1 31130 1gxqA 106 3.85e+01 a.4.6.1 70721 1b6rA 355 3.91e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1am4A 199 3.92e+01 1tx4A a.116.1.1 19100 2a6hD 1524 3.94e+01 1qlaC 256 4.07e+01 1qlaC f.21.2.1 43722 1d2rA 326 4.08e+01 1d2rB c.26.1.1 31572 1ai7A 209 4.11e+01 1ajqA d.153.1.2 41845 1j9yA 385 4.29e+01 1j9yA c.1.8.3 62791 2a5yA 204 4.29e+01 1bccH 78 4.33e+01 1be3H f.28.1.1 43702 1iuqA 367 4.33e+01 c.112.1.1 90703 1g5yA 238 4.45e+01 1lbd a.123.1.1 60294 1v96A 149 4.45e+01 2fupA 168 4.46e+01 1i86A 389 4.47e+01 c.95.1.2,c.95.1.2 66068,66069 2thiA 379 4.49e+01 2thiA c.94.1.1 35794 1mtpA 323 4.58e+01 e.1.1.1 85107 1ji7A 89 4.58e+01 a.60.1.1 71682 1b33A 160 4.63e+01 1qgwC a.1.1.3 15649 1tx4A 198 4.67e+01 1tx4A a.116.1.1 19098 1mznA 240 4.70e+01 a.123.1.1 79704 2a6hC 1119 4.79e+01 1qqiA 104 4.81e+01 1opc a.4.6.1 16233 1zxxA 319 4.83e+01 1b6sA 355 4.84e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28242,31649,41494 3thiA 371 4.93e+01 2thiA c.94.1.1 35792 1o5xA 248 4.98e+01 c.1.1.1 92528 1lx8A 55 5.03e+01 a.6.1.7 84734 1atu 374 5.06e+01 1ovaA e.1.1.1 42636 1b3bA 415 5.11e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1ci0A 228 5.20e+01 1ci0A b.45.1.1 25750 1m13A 316 5.22e+01 a.123.1.1 84746 2xis 387 5.23e+01 4xis c.1.15.3 29427 1dq3A 454 5.26e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1iruK 201 5.30e+01 d.153.1.4 71362 1d7kA 421 5.32e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1xkgA 312 5.33e+01 1zk7A 467 5.41e+01 1i88A 389 5.53e+01 c.95.1.2,c.95.1.2 66070,66071 2hmx 133 5.66e+01 1hiwA a.61.1.1 18129 1x91A 153 5.66e+01 1u3eM 174 5.75e+01 d.4.1.3,d.285.1.1 107640,107641 1h2rL 534 5.76e+01 1h2rL e.18.1.1 43298 2ghcX 261 5.81e+01 1k8kA 418 5.88e+01 c.55.1.1,c.55.1.1 68305,68306 1oen 540 5.94e+01 1ayl c.91.1.1,c.109.1.1 64750,64751 1tpfA 250 5.96e+01 1amk c.1.1.1 28467 1oafA 261 5.97e+01 a.93.1.1 86734 1pujA 282 6.07e+01 c.37.1.8 88294 1vj7A 393 6.13e+01 a.211.1.1,d.218.1.8 100801,100802 1gx3A 284 6.20e+01 d.3.1.5 70678 1mqvA 125 6.22e+01 a.24.3.2 79415 1mnzA 388 6.27e+01 c.1.15.3 79328 1eemA 241 6.28e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1gm7A 209 6.31e+01 d.153.1.2 65302 1eztA 166 6.40e+01 1agrE a.91.1.1 18541 2bycA 137 6.54e+01 2bmaA 470 6.56e+01 1iirA 415 6.67e+01 1iirA c.87.1.5 62453 1bi5A 389 6.67e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1u2xA 474 6.67e+01 c.72.1.3 107622 1w0hA 204 6.69e+01 1tuhA 156 6.70e+01 d.17.4.11 107345 1ekeA 230 6.76e+01 1ekeA c.55.3.1 33572 1tph1 247 6.86e+01 1amk 2bngA 149 6.86e+01 1cx4A 305 6.91e+01 b.82.3.2,b.82.3.2 59099,59100 2ex3B 264 6.93e+01 1ydgA 211 7.02e+01 1txoA 237 7.03e+01 1lyxA 248 7.09e+01 c.1.1.1 78304 1ezfA 340 7.18e+01 1ezfA a.128.1.2 19440 1gw9A 388 7.18e+01 c.1.15.3 70658 2bs3C 256 7.37e+01 1wudA 89 7.40e+01 1r5qA 102 7.47e+01 a.186.1.1 97103 1ad6 185 7.49e+01 1guxA a.74.1.3 18390 4xis 387 7.51e+01 4xis c.1.15.3 29421 1hyhA 309 7.62e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1ib8A 164 7.67e+01 b.38.2.1,d.52.4.1 71168,71169 1yzxA 226 7.69e+01 1kptA 105 7.72e+01 1kptA d.70.1.1 39588 1allB 161 7.81e+01 1qgwC a.1.1.3 15648 1ctt 294 7.84e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1f16A 192 7.85e+01 1f16A f.1.4.1 43400 1mw7A 240 7.86e+01 e.39.1.1 79557 1nt4A 391 7.90e+01 c.60.1.2 92102 1xis 387 8.03e+01 4xis c.1.15.3 29422 1edg 380 8.06e+01 1edg c.1.8.3 28807 1av8A 340 8.13e+01 1xikA a.25.1.2 16796 1hleA 345 8.13e+01 1ovaA e.1.1.1 42618 1h2aL 567 8.16e+01 1h2rL e.18.1.1 43299 1gk9A 260 8.20e+01 d.153.1.2 65246 1hiwA 133 8.22e+01 1hiwA a.61.1.1 18122 1vjjA 692 8.25e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1wb9A 800 8.28e+01 1d6tA 117 8.29e+01 1a6f d.14.1.2 37565 1guxA 218 8.38e+01 1guxA a.74.1.3 18388 1mp9A 198 8.55e+01 d.129.1.1,d.129.1.1 91385,91386 1tfe 145 8.58e+01 1tfe d.43.1.1 38680 2aa1A 144 8.60e+01 1a7vA 125 8.64e+01 1cpq a.24.3.2 16562 1ncx 162 8.68e+01 1ncx a.39.1.5 17222 1nktA 922 8.79e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1nb5I 98 8.84e+01 d.17.1.2 80381 1t7lA 766 8.85e+01 2b7kA 200 8.86e+01 1giqA 413 8.87e+01 d.166.1.1,d.166.1.1 76224,76225 1avsA 90 8.89e+01 1cll a.39.1.5 17226 1fnnA 389 8.90e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1h3qA 140 8.91e+01 d.110.4.3 76652 1sfcA 96 8.93e+01 1sfcA h.1.15.1 45643 1xlqA 106 8.96e+01 1cxqA 162 8.99e+01 1cxqA c.55.3.2 33621 1wlxA 129 8.99e+01