# 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 9.05e-03 1pft g.41.3.1 45206 2ct7A 86 2.36e-01 1ww8A 439 1.56e+00 2a20A 62 2.16e+00 2fqpA 97 2.23e+00 1ur6B 52 2.27e+00 g.44.1.1 99812 1vqoZ 83 2.45e+00 1vckA 115 2.54e+00 1vd4A 62 2.60e+00 1odhA 174 2.83e+00 d.239.1.1 86850 1s72Z 73 3.21e+00 g.41.8.1 105345 1e4uA 78 3.42e+00 1e4uA g.44.1.1 59231 1vk6A 269 3.61e+00 d.113.1.4,d.113.1.4 100851,100852 1ywzA 175 3.66e+00 1dgfA 497 3.82e+00 1cf9A e.5.1.1 42782 1dghB 498 3.85e+00 1cf9A e.5.1.1 42791 1dsvA 31 4.73e+00 1dsvA g.40.1.1 45174 1lm5A 214 4.93e+00 d.211.2.1 74029 1oapA 109 5.00e+00 d.79.7.1 92706 1zy1B 197 5.00e+00 1gnf 46 5.08e+00 1gatA g.39.1.1 45107 1tr9A 341 5.84e+00 1wd2A 60 6.29e+00 g.44.1.1 109232 830cA 168 7.25e+00 1ck7A d.92.1.11 40400 1jm7A 112 7.48e+00 g.44.1.1 66880 1ffkW 73 7.67e+00 1ffkW g.41.8.1 45315 2bwfA 77 8.11e+00 1p9rA 418 8.51e+00 c.37.1.11 94399 1z60A 59 9.03e+00 2a8mA 420 9.30e+00 1aiqA 264 9.53e+00 1bkpA d.117.1.1 40967 1rhoA 145 9.64e+00 1rhoA b.1.18.8 21899 1rhoC 145 9.86e+00 1rhoA b.1.18.8 21901 2a8jA 420 1.02e+01 1ctl 85 1.05e+01 g.39.1.3,g.39.1.3 45133,45134 2tscA 264 1.06e+01 1bkpA d.117.1.1 40952 1hbxG 157 1.07e+01 1awcA a.4.5.21 60934 2a1rA 430 1.10e+01 2g8oA 264 1.11e+01 1hvyA 288 1.14e+01 1bkpA d.117.1.1 41049 1fsoA 139 1.17e+01 1rhoA b.1.18.8 60007 2g8mA 264 1.19e+01 1kmtA 141 1.23e+01 b.1.18.8 77442 1rlyA 60 1.26e+01 g.41.3.1 104988 1dl6A 58 1.30e+01 1dl6A g.41.3.1 45207 1fiqB 350 1.34e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1cxvA 164 1.36e+01 1ck7A d.92.1.11 40404 1erd 40 1.39e+01 1erd a.10.1.1 16362 1tg6A 277 1.40e+01 1lv3A 68 1.42e+01 g.39.1.9 78231 1axwA 265 1.44e+01 1bkpA d.117.1.1 40938 1do0A 442 1.45e+01 1do0A c.37.1.20 32432 2fvhA 120 1.46e+01 1f62A 51 1.47e+01 1f62A g.50.1.2 45360 1cxxA 113 1.48e+01 1iml g.39.1.3,g.39.1.3 45139,45140 1wfeA 86 1.48e+01 1evfA 264 1.48e+01 1bkpA d.117.1.1 40932 1qqqA 264 1.51e+01 1bkpA d.117.1.1 40931 1etc 110 1.54e+01 1awcA a.4.5.21 16162 2kauA 100 1.56e+01 1ubpA d.8.1.1 37335 7catA 506 1.58e+01 1cf9A e.5.1.1 42781 8rxnA 52 1.63e+01 1rb9 g.41.5.1 45215 1y88A 199 1.64e+01 1bc8C 93 1.65e+01 1awcA a.4.5.21 16168 1b8tA 192 1.65e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1oghA 204 1.66e+01 b.85.4.1 86994 1w0uA 55 1.69e+01 1rb9 53 1.71e+01 1rb9 g.41.5.1 45214 1z1zA 131 1.75e+01 1jagA 241 1.75e+01 c.37.1.1 66463 1yagA 375 1.76e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1zxzA 197 1.77e+01 1ejxA 100 1.79e+01 d.8.1.1 83182 1t1jA 125 1.80e+01 c.137.1.1 106249 1fl2A 310 1.83e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1fwcA 100 1.85e+01 1ubpA d.8.1.1 37331 1wgeA 83 1.86e+01 1l8dA 112 1.90e+01 h.4.12.1 73687 1pkhA 204 1.91e+01 b.85.4.1 94832 1p32A 209 1.91e+01 1p32A d.25.1.1 38379 1jj2Y 73 1.91e+01 1ffkW g.41.8.1 63110 1bzsA 165 1.92e+01 1hfc d.92.1.11 40348 1bor 56 1.93e+01 1bor g.44.1.1 45324 1uufA 369 1.93e+01 b.35.1.2,c.2.1.1 100006,100007 1gatA 60 1.95e+01 1gatA g.39.1.1 45106 2avuE 192 1.95e+01 1rutX 188 1.98e+01 1a85A 158 1.99e+01 1hfc d.92.1.11 40355 1yk4A 52 2.05e+01 1dx8A 70 2.06e+01 1rb9 g.41.5.1 45243 1iml 76 2.07e+01 1iml g.39.1.3,g.39.1.3 45145,45146 1kdj 102 2.08e+01 1plc b.6.1.1 22864 1qli 113 2.10e+01 1iml g.39.1.3,g.39.1.3 45141,45142 1i76A 163 2.14e+01 1hfc d.92.1.11 61877 1g25A 65 2.16e+01 1g25A g.44.1.1 45325 1afp 51 2.16e+01 1afp g.26.1.1 44947 2ezvA 269 2.23e+01 1ee8A 266 2.26e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1vq0A 302 2.48e+01 1jzxM 60 2.49e+01 i.1.1.2 67887 1ifqA 138 2.53e+01 1ifqA d.110.4.1 62350 1d4xA 375 2.59e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1z6uA 150 2.61e+01 2aq4A 434 2.63e+01 5rxn 54 2.65e+01 1rb9 g.41.5.1 45225 1v87A 114 2.65e+01 g.44.1.1 108422 2sak 121 2.67e+01 2sak d.15.5.1 37711 1far 52 2.70e+01 1far g.49.1.1 45351 1l1oC 181 2.70e+01 b.40.4.3 73480 1scuA 288 2.73e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1us5A 314 2.80e+01 c.94.1.1 99856 1poc 134 2.80e+01 1poc a.133.1.1 19513 1rdg 53 2.85e+01 1rb9 g.41.5.1 45221 1chc 68 2.99e+01 1chc g.44.1.1 45323 4ubpA 101 3.02e+01 1ubpA d.8.1.1 37352 1ubpA 101 3.06e+01 1ubpA d.8.1.1 37353 1sur 215 3.06e+01 1sur c.26.2.2 31620 1dgaA 375 3.07e+01 1yagA 1i50L 70 3.07e+01 g.41.9.2 61766 1cokA 68 3.16e+01 1cokA a.60.1.2 17945 1zsqA 528 3.19e+01 1exkA 79 3.19e+01 1exkA g.54.1.1 45384 1yl35 60 3.21e+01 1w27A 714 3.37e+01 1q35A 320 3.40e+01 c.94.1.1 95661 1iro 54 3.51e+01 1rb9 g.41.5.1 45223 1d0qA 103 3.54e+01 1d0qA g.41.3.2 45208 1gvjA 146 3.61e+01 a.4.5.21 90525 4rxn 54 3.64e+01 1rb9 g.41.5.1 45226 1qxfA 66 3.64e+01 g.41.8.4 96527 1tys 265 3.66e+01 1bkpA d.117.1.1 40937 1mea 28 3.68e+01 g.41.1.1 45176 1x75A 132 3.69e+01 1faq 52 3.69e+01 1far g.49.1.1 45352 1t0bA 252 3.86e+01 c.23.16.6 106199 2ct5A 73 3.93e+01 1jm1A 204 3.94e+01 b.33.1.1 71745 1ypvA 313 4.06e+01 1u79A 129 4.07e+01 d.26.1.1 107714 1plr 258 4.13e+01 1plq d.131.1.2,d.131.1.2 41390,41391 1e53A 59 4.14e+01 1e53A g.49.1.2 45356 1sp1 29 4.15e+01 g.37.1.1 45051 1mr1C 99 4.19e+01 d.217.1.2 79420 1xakA 83 4.20e+01 2bx9A 53 4.20e+01 1jbjA 186 4.22e+01 b.1.1.4,b.1.1.4 66482,66483 1v32A 101 4.33e+01 a.42.1.1 100277 1wuaA 375 4.36e+01 2a8lA 420 4.36e+01 1hyuA 521 4.37e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1g47A 77 4.42e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 2scuA 288 4.43e+01 2scuA c.2.1.8,c.23.4.1 30303,31131 1xd3A 230 4.50e+01 1lw3A 657 4.59e+01 b.55.1.8,c.45.1.3 91152,91153 1xg1A 67 4.60e+01 3gatA 66 4.63e+01 1gatA g.39.1.1 45103 1wjpA 107 4.65e+01 1so2A 420 4.66e+01 a.211.1.2 98936 1ayoA 130 4.73e+01 1ayoA b.2.4.1 22431 1ptq 50 4.78e+01 1ptq g.49.1.1 45349 1b2jA 54 4.91e+01 1rb9 g.41.5.1 45231 1ajw 145 4.92e+01 1rhoA b.1.18.8 21905 1weoA 93 4.97e+01 1m1qA 91 5.06e+01 a.138.1.3 74419 1vor2 58 5.12e+01 1twfL 70 5.14e+01 1jfrA 262 5.25e+01 1jfrA c.69.1.16 34724 1a7i 81 5.27e+01 1b8tA g.39.1.3,g.39.1.3 45143,45144 1c76A 136 5.28e+01 2sak d.15.5.1 37718 2gatA 66 5.29e+01 1gatA g.39.1.1 45102 1k3eA 156 5.31e+01 d.198.1.1 68103 1dxgA 36 5.50e+01 1dxgA g.41.5.2 45247 1qvbA 481 5.50e+01 1qvbA c.1.8.4 28983 1nv8A 284 5.50e+01 c.66.1.30 86224 1bq8A 54 5.73e+01 1rb9 g.41.5.1 45237 2fe5A 94 5.74e+01 9atcB 146 5.75e+01 8atcB d.58.2.1,g.41.7.1 39057,45309 1wxiA 275 5.80e+01 1f9xA 120 5.87e+01 1g3fA g.52.1.1 59748 1qz5A 375 5.93e+01 c.55.1.1,c.55.1.1 96614,96615 1y9uA 323 6.01e+01 1jm7B 117 6.14e+01 g.44.1.1 66881 1m0gA 30 6.25e+01 g.46.1.1 84743 2fxuA 375 6.29e+01 1uch 230 6.36e+01 1uch d.3.1.6 37129 1wijA 140 6.37e+01 1fo4A 1332 6.45e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1bq9A 54 6.51e+01 1rb9 g.41.5.1 45238 1bncA 449 6.61e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488 2b5iD 217 6.64e+01 2fiyA 309 6.67e+01 1ln1A 214 6.75e+01 d.129.3.2 74038 1p6pA 125 6.85e+01 b.60.1.2 87839 1brfA 53 6.94e+01 1rb9 g.41.5.1 45236 2airB 153 7.02e+01 1shuX 182 7.12e+01 c.62.1.1 98882 1j6zA 376 7.13e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1s9rA 410 7.13e+01 d.126.1.4 98758 1yc5A 246 7.27e+01 1dk2A 86 7.29e+01 1bpyA a.60.6.1 18078 1zu1A 127 7.32e+01 2d1uA 104 7.33e+01 1nigA 152 7.33e+01 a.25.2.1 85740 1wjvA 79 7.49e+01 1bas 154 7.49e+01 1bfg b.42.1.1 25488 1a78A 134 7.67e+01 1c1lA b.29.1.3 24212 1z92B 219 7.71e+01 1atnA 373 7.72e+01 1yagA c.55.1.1,c.55.1.1 33437,33438 1hdlA 55 7.72e+01 g.68.1.2 65808 2drpA 66 7.73e+01 2drpA g.37.1.1,g.37.1.1 45026,45027 2sttA 96 7.78e+01 1awcA a.4.5.21 16163 1gmxA 108 7.82e+01 c.46.1.3 65355 2btfA 375 7.88e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 4tgf 50 8.06e+01 3tgf g.3.11.1 44294 1z6mA 175 8.20e+01 6rxn 46 8.36e+01 1rb9 g.41.5.1 45222 1q18A 332 8.39e+01 c.55.1.7,c.55.1.7 104470,104471 1k81A 36 8.58e+01 g.59.1.1 72136 1tbn 82 8.61e+01 1ptq g.49.1.1 45354 1gn0A 108 8.65e+01 c.46.1.3 65358 1sz2A 332 8.67e+01 1o12A 376 8.73e+01 b.92.1.5,c.1.9.10 80758,80759 1buqA 125 8.76e+01 1opy d.17.4.3 38111 1vr0A 247 8.81e+01 2cklB 165 8.82e+01 1u8vA 490 8.90e+01