# 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 1pft 50 2.37e-02 1pft g.41.3.1 45206 2ct7A 86 3.47e-01 1vqoZ 83 1.24e+00 1s72Z 73 1.56e+00 g.41.8.1 105345 1vckA 115 2.20e+00 2fqpA 97 2.39e+00 1ww8A 439 2.49e+00 1zy1B 197 2.79e+00 1ywzA 175 4.17e+00 1vk6A 269 4.30e+00 d.113.1.4,d.113.1.4 100851,100852 1ur6B 52 4.74e+00 g.44.1.1 99812 2a20A 62 4.79e+00 1vd4A 62 4.84e+00 1dsvA 31 5.51e+00 1dsvA g.40.1.1 45174 1dgfA 497 5.61e+00 1cf9A e.5.1.1 42782 1dghB 498 5.74e+00 1cf9A e.5.1.1 42791 1gnf 46 6.14e+00 1gatA g.39.1.1 45107 1odhA 174 6.54e+00 d.239.1.1 86850 1e4uA 78 6.87e+00 1e4uA g.44.1.1 59231 1wd2A 60 7.42e+00 g.44.1.1 109232 1oapA 109 7.47e+00 d.79.7.1 92706 1lm5A 214 7.62e+00 d.211.2.1 74029 1ffkW 73 7.69e+00 1ffkW g.41.8.1 45315 830cA 168 8.39e+00 1ck7A d.92.1.11 40400 1hbxG 157 8.67e+00 1awcA a.4.5.21 60934 1aiqA 264 9.42e+00 1bkpA d.117.1.1 40967 1zxzA 197 9.46e+00 2bwfA 77 9.62e+00 2cjsC 62 9.63e+00 1hvyA 288 9.92e+00 1bkpA d.117.1.1 41049 2a8mA 420 9.93e+00 1dl6A 58 1.02e+01 1dl6A g.41.3.1 45207 1w0uA 55 1.02e+01 2tscA 264 1.04e+01 1bkpA d.117.1.1 40952 2g8oA 264 1.05e+01 1rlyA 60 1.14e+01 g.41.3.1 104988 2a8jA 420 1.15e+01 2g8mA 264 1.16e+01 1p9rA 418 1.17e+01 c.37.1.11 94399 1evfA 264 1.30e+01 1bkpA d.117.1.1 40932 1jj2Y 73 1.31e+01 1ffkW g.41.8.1 63110 1qqqA 264 1.35e+01 1bkpA d.117.1.1 40931 1axwA 265 1.35e+01 1bkpA d.117.1.1 40938 1jm7A 112 1.36e+01 g.44.1.1 66880 1bc8C 93 1.39e+01 1awcA a.4.5.21 16168 1tr9A 341 1.48e+01 1wfeA 86 1.54e+01 1oghA 204 1.55e+01 b.85.4.1 86994 2a1rA 430 1.59e+01 2fvhA 120 1.59e+01 1cxvA 164 1.64e+01 1ck7A d.92.1.11 40404 1pkhA 204 1.67e+01 b.85.4.1 94832 1etc 110 1.77e+01 1awcA a.4.5.21 16162 1rhoA 145 1.82e+01 1rhoA b.1.18.8 21899 2kauA 100 1.82e+01 1ubpA d.8.1.1 37335 1l1oC 181 1.83e+01 b.40.4.3 73480 8rxnA 52 1.88e+01 1rb9 g.41.5.1 45215 1rhoC 145 1.89e+01 1rhoA b.1.18.8 21901 1z60A 59 1.89e+01 1rb9 53 1.92e+01 1rb9 g.41.5.1 45214 1erd 40 1.93e+01 1erd a.10.1.1 16362 1jagA 241 1.95e+01 c.37.1.1 66463 1gatA 60 1.98e+01 1gatA g.39.1.1 45106 1f62A 51 2.01e+01 1f62A g.50.1.2 45360 2avuE 192 2.05e+01 1bor 56 2.08e+01 1bor g.44.1.1 45324 1ctl 85 2.10e+01 g.39.1.3,g.39.1.3 45133,45134 1ejxA 100 2.13e+01 d.8.1.1 83182 1p32A 209 2.15e+01 1p32A d.25.1.1 38379 1fsoA 139 2.17e+01 1rhoA b.1.18.8 60007 1fwcA 100 2.20e+01 1ubpA d.8.1.1 37331 1fiqB 350 2.21e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1lv3A 68 2.26e+01 g.39.1.9 78231 7catA 506 2.26e+01 1cf9A e.5.1.1 42781 1y88A 199 2.31e+01 1t1jA 125 2.33e+01 c.137.1.1 106249 1kmtA 141 2.37e+01 b.1.18.8 77442 1bzsA 165 2.41e+01 1hfc d.92.1.11 40348 5rxn 54 2.52e+01 1rb9 g.41.5.1 45225 2g2kA 170 2.56e+01 1afp 51 2.57e+01 1afp g.26.1.1 44947 1i76A 163 2.58e+01 1hfc d.92.1.11 61877 1yk4A 52 2.61e+01 1xg1A 67 2.63e+01 1w27A 714 2.64e+01 1yl35 60 2.68e+01 1a85A 158 2.71e+01 1hfc d.92.1.11 40355 4ubpA 101 2.74e+01 1ubpA d.8.1.1 37352 2sak 121 2.76e+01 2sak d.15.5.1 37711 1ubpA 101 2.78e+01 1ubpA d.8.1.1 37353 1dx8A 70 2.79e+01 1rb9 g.41.5.1 45243 1vq0A 302 2.81e+01 1kdj 102 2.82e+01 1plc b.6.1.1 22864 1z1zA 131 2.84e+01 1g25A 65 2.90e+01 1g25A g.44.1.1 45325 1jzxM 60 2.94e+01 i.1.1.2 67887 2ezvA 269 2.94e+01 1b8tA 192 2.96e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1l8dA 112 2.98e+01 h.4.12.1 73687 1tys 265 3.04e+01 1bkpA d.117.1.1 40937 1fl2A 310 3.05e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1far 52 3.14e+01 1far g.49.1.1 45351 1yagA 375 3.22e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1sp1 29 3.23e+01 g.37.1.1 45051 1cxxA 113 3.24e+01 1iml g.39.1.3,g.39.1.3 45139,45140 1zsqA 528 3.30e+01 1rdg 53 3.34e+01 1rb9 g.41.5.1 45221 1wgeA 83 3.36e+01 1exkA 79 3.36e+01 1exkA g.54.1.1 45384 1iro 54 3.40e+01 1rb9 g.41.5.1 45223 1xakA 83 3.41e+01 1do0A 442 3.43e+01 1do0A c.37.1.20 32432 1z6uA 150 3.43e+01 4rxn 54 3.53e+01 1rb9 g.41.5.1 45226 1d4xA 375 3.53e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1ee8A 266 3.56e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1qli 113 3.61e+01 1iml g.39.1.3,g.39.1.3 45141,45142 1us5A 314 3.72e+01 c.94.1.1 99856 1qxfA 66 3.75e+01 g.41.8.4 96527 1v87A 114 3.80e+01 g.44.1.1 108422 1t0bA 252 3.81e+01 c.23.16.6 106199 1ayoA 130 3.87e+01 1ayoA b.2.4.1 22431 1v32A 101 3.89e+01 a.42.1.1 100277 1so2A 420 4.07e+01 a.211.1.2 98936 1ypvA 313 4.10e+01 1poc 134 4.12e+01 1poc a.133.1.1 19513 1faq 52 4.12e+01 1far g.49.1.1 45352 1mea 28 4.16e+01 g.41.1.1 45176 1c76A 136 4.25e+01 2sak d.15.5.1 37718 1lw3A 657 4.31e+01 b.55.1.8,c.45.1.3 91152,91153 1ifqA 138 4.32e+01 1ifqA d.110.4.1 62350 1d0qA 103 4.33e+01 1d0qA g.41.3.2 45208 2a8lA 420 4.37e+01 1rutX 188 4.39e+01 2bx9A 53 4.41e+01 1vor2 58 4.46e+01 1gvjA 146 4.47e+01 a.4.5.21 90525 1b2jA 54 4.56e+01 1rb9 g.41.5.1 45231 1dgaA 375 4.64e+01 1yagA 2fe5A 94 4.65e+01 1wjpA 107 4.66e+01 1x75A 132 4.74e+01 1iml 76 4.78e+01 1iml g.39.1.3,g.39.1.3 45145,45146 1sur 215 4.78e+01 1sur c.26.2.2 31620 1cokA 68 4.81e+01 1cokA a.60.1.2 17945 3gatA 66 4.90e+01 1gatA g.39.1.1 45103 2aq4A 434 5.01e+01 1tsm 316 5.08e+01 1bkpA d.117.1.1 41024 1chc 68 5.10e+01 1chc g.44.1.1 45323 2ct5A 73 5.15e+01 1jm1A 204 5.18e+01 b.33.1.1 71745 1uufA 369 5.24e+01 b.35.1.2,c.2.1.1 100006,100007 1wijA 140 5.41e+01 1k3eA 156 5.41e+01 d.198.1.1 68103 2gatA 66 5.50e+01 1gatA g.39.1.1 45102 1i50L 70 5.64e+01 g.41.9.2 61766 1bq8A 54 5.72e+01 1rb9 g.41.5.1 45237 1xd3A 230 5.79e+01 1cezA 883 5.80e+01 1cezA e.8.1.3 43110 2dasA 62 5.95e+01 1brfA 53 6.05e+01 1rb9 g.41.5.1 45236 1bq9A 54 6.18e+01 1rb9 g.41.5.1 45238 1q35A 320 6.19e+01 c.94.1.1 95661 1m0gA 30 6.19e+01 g.46.1.1 84743 9atcB 146 6.24e+01 8atcB d.58.2.1,g.41.7.1 39057,45309 1tg6A 277 6.47e+01 1bncA 449 6.47e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488 1u79A 129 6.65e+01 d.26.1.1 107714 1tbn 82 6.75e+01 1ptq g.49.1.1 45354 1qlnA 883 6.76e+01 1cezA e.8.1.3 43111 2airB 153 6.82e+01 1mr1C 99 6.92e+01 d.217.1.2 79420 1hdlA 55 6.96e+01 g.68.1.2 65808 1wuaA 375 6.98e+01 1weoA 93 6.99e+01 1jbjA 186 7.02e+01 b.1.1.4,b.1.1.4 66482,66483 1hyuA 521 7.06e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1jm7B 117 7.09e+01 g.44.1.1 66881 1bas 154 7.17e+01 1bfg b.42.1.1 25488 1a7i 81 7.35e+01 1b8tA g.39.1.3,g.39.1.3 45143,45144 1uch 230 7.51e+01 1uch d.3.1.6 37129 1wjvA 79 7.61e+01 1m1qA 91 7.72e+01 a.138.1.3 74419 1shuX 182 7.74e+01 c.62.1.1 98882 1p6pA 125 7.79e+01 b.60.1.2 87839 1mswD 883 7.81e+01 e.8.1.3 79427 2sttA 96 7.85e+01 1awcA a.4.5.21 16163 1zu1A 127 7.95e+01 1plr 258 7.99e+01 1plq d.131.1.2,d.131.1.2 41390,41391 1ptq 50 8.07e+01 1ptq g.49.1.1 45349 1f9xA 120 8.09e+01 1g3fA g.52.1.1 59748 1ajw 145 8.11e+01 1rhoA b.1.18.8 21905 1k81A 36 8.12e+01 g.59.1.1 72136 1jfrA 262 8.14e+01 1jfrA c.69.1.16 34724 2d1uA 104 8.24e+01 1yc5A 246 8.25e+01 1y9uA 323 8.27e+01 1nv8A 284 8.27e+01 c.66.1.30 86224 1gmxA 108 8.30e+01 c.46.1.3 65355 1b13A 54 8.39e+01 1rb9 g.41.5.1 45227 2drpA 66 8.41e+01 2drpA g.37.1.1,g.37.1.1 45026,45027 1bfg 146 8.55e+01 1bfg b.42.1.1 25485 4tgf 50 8.58e+01 3tgf g.3.11.1 44294 1xesA 413 8.61e+01 1scuA 288 8.75e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1qz5A 375 8.79e+01 c.55.1.1,c.55.1.1 96614,96615 1e53A 59 8.81e+01 1e53A g.49.1.2 45356 1wxiA 275 8.84e+01