# List of top-scoring protein chains for t06-100-30-str2-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 1vqoZ 83 1.28e-01 1vk6A 269 2.04e-01 d.113.1.4,d.113.1.4 100851,100852 2ct7A 86 2.41e-01 1vckA 115 2.86e-01 1ee8A 266 5.02e-01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1odhA 174 7.36e-01 d.239.1.1 86850 1ypvA 313 8.21e-01 1rutX 188 8.44e-01 1l1oC 181 9.31e-01 b.40.4.3 73480 1jm1A 204 9.34e-01 b.33.1.1 71745 1d0qA 103 9.75e-01 1d0qA g.41.3.2 45208 1yk4A 52 1.30e+00 1ptq 50 1.36e+00 1ptq g.49.1.1 45349 1rlyA 60 1.37e+00 g.41.3.1 104988 2cklB 165 1.58e+00 1k82A 268 1.79e+00 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1neeA 138 1.88e+00 d.241.1.1,g.59.1.1 91841,91842 1vd4A 62 2.03e+00 1pcxA 810 2.15e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1v54F 98 2.33e+00 g.41.5.3 100327 1iro 54 2.50e+00 1rb9 g.41.5.1 45223 1woyA 500 2.59e+00 1n6zA 105 2.84e+00 d.263.1.1 85369 2fqpA 97 2.91e+00 1fp0A 88 3.21e+00 1fp0A g.50.1.2 45361 1rb9 53 3.31e+00 1rb9 g.41.5.1 45214 1qxfA 66 3.35e+00 g.41.8.4 96527 2cy5A 140 3.55e+00 1rfs 139 3.59e+00 1rfs b.33.1.1 24434 1ur6B 52 4.24e+00 g.44.1.1 99812 1k8kA 418 4.62e+00 c.55.1.1,c.55.1.1 68305,68306 1mswD 883 4.71e+00 e.8.1.3 79427 1kmtA 141 4.75e+00 b.1.18.8 77442 1nykA 165 4.77e+00 b.33.1.1 86408 1u8bA 133 4.91e+00 2a1rA 430 5.02e+00 1r2zA 274 5.07e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1hyeA 313 5.19e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1qwtA 255 5.52e+00 b.26.1.3 96501 1vq0A 302 5.63e+00 1brfA 53 5.77e+00 1rb9 g.41.5.1 45236 1dxgA 36 5.78e+00 1dxgA g.41.5.2 45247 1rdg 53 5.81e+00 1rb9 g.41.5.1 45221 1dzlA 505 6.00e+00 1dzlA b.121.6.1 23586 1xd3A 230 6.06e+00 1tp6A 128 6.11e+00 d.17.4.12 107184 1qqqA 264 6.83e+00 1bkpA d.117.1.1 40931 1ywzA 175 6.97e+00 1yxlA 119 7.25e+00 1pfvA 551 7.26e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2g8mA 264 7.35e+00 1twfI 122 7.38e+00 2g8oA 264 7.48e+00 1s6bA 119 7.84e+00 a.133.1.2 98592 1pxvA 183 8.44e+00 d.3.1.1 95301 6rxn 46 8.73e+00 1rb9 g.41.5.1 45222 1y13A 181 9.54e+00 1p32A 209 9.87e+00 1p32A d.25.1.1 38379 1t0bA 252 1.01e+01 c.23.16.6 106199 1mr1C 99 1.03e+01 d.217.1.2 79420 1u5kA 244 1.04e+01 1yc5A 246 1.07e+01 1iyeA 309 1.07e+01 e.17.1.1 83786 1fs7A 485 1.08e+01 1qdbA a.138.1.3 19691 1wxiA 275 1.08e+01 1y4lA 121 1.08e+01 1pvmA 184 1.09e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2au3A 407 1.09e+01 1ww8A 439 1.10e+01 1vm9A 111 1.10e+01 b.33.1.1 108886 1vrmA 325 1.10e+01 1ew4A 106 1.19e+01 1ew4A d.82.2.1 40023 1qz5A 375 1.20e+01 c.55.1.1,c.55.1.1 96614,96615 2cklA 108 1.20e+01 1mvfD 82 1.23e+01 b.129.1.1 85143 1upiA 225 1.23e+01 b.82.1.1 99757 2g58A 121 1.24e+01 2bx9A 53 1.24e+01 1wfeA 86 1.27e+01 1lkoA 191 1.27e+01 a.25.1.1,g.41.5.1 78063,78064 1rmd 116 1.28e+01 1rmd g.37.1.1,g.44.1.1 45025,45322 1ji1A 637 1.28e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1uh4A 637 1.28e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1g4iA 123 1.28e+01 1poa a.133.1.2 60241 1cojA 212 1.32e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1wd2A 60 1.36e+01 g.44.1.1 109232 1k1eA 180 1.40e+01 c.108.1.5 67995 1p5vA 235 1.41e+01 b.1.11.1,b.7.2.1 87812,87813 1vhqA 232 1.43e+01 c.23.16.2 100696 1ww9A 392 1.45e+01 1g8kB 133 1.46e+01 1g8jB b.33.1.1 24435 1w2lA 99 1.49e+01 1lj5A 379 1.50e+01 e.1.1.1 73928 2fxuA 375 1.51e+01 3daaA 277 1.53e+01 1daaA e.17.1.1 43272 1tdzA 272 1.57e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 2aq6A 147 1.59e+01 2fe5A 94 1.62e+01 1zin 217 1.64e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2fm8A 135 1.68e+01 1l8dA 112 1.68e+01 h.4.12.1 73687 1w9aA 147 1.69e+01 1r6lA 239 1.70e+01 d.14.1.4,d.101.1.1 97153,97154 1dgfA 497 1.72e+01 1cf9A e.5.1.1 42782 1hcnB 145 1.73e+01 1hcnB g.17.1.4 44810 1u3eM 174 1.78e+01 d.4.1.3,d.285.1.1 107640,107641 1jltA 122 1.81e+01 a.133.1.2 66867 1jgsA 138 1.82e+01 a.4.5.28 66683 1dusA 194 1.83e+01 1dusA c.66.1.4 34182 1q35A 320 1.90e+01 c.94.1.1 95661 1xakA 83 1.90e+01 1y4hA 188 1.94e+01 1z4rA 168 1.96e+01 1ia9A 280 1.96e+01 1ia9A d.144.1.5 62113 1mtyD 512 1.97e+01 1mhyD a.25.1.2 16742 1vphA 149 1.99e+01 1m2kA 249 2.01e+01 c.31.1.5 84754 1eajA 126 2.02e+01 1f5wA b.1.1.1 59401 1cbs 137 2.05e+01 1hmt b.60.1.2 27201 1yovA 537 2.10e+01 1vfyA 73 2.12e+01 1vfyA g.50.1.1 45357 1mea 28 2.15e+01 g.41.1.1 45176 1wrvA 308 2.15e+01 1r5mA 425 2.20e+01 1bnb 38 2.25e+01 1bnb g.9.1.1 44592 1yt5A 258 2.25e+01 1gvjA 146 2.32e+01 a.4.5.21 90525 1ayoA 130 2.33e+01 1ayoA b.2.4.1 22431 2airB 153 2.41e+01 1z6uA 150 2.46e+01 2fiyA 309 2.50e+01 1k0mA 241 2.50e+01 a.45.1.1,c.47.1.5 67949,67950 1wijA 140 2.54e+01 1x75A 132 2.54e+01 1ryqA 69 2.56e+01 g.41.9.3 105126 1a78A 134 2.58e+01 1c1lA b.29.1.3 24212 1g6aA 271 2.58e+01 1btl e.3.1.1 42704 1r8oB 71 2.60e+01 1wjpA 107 2.60e+01 1ti6B 274 2.71e+01 b.3.5.1,d.58.1.5 106976,106977 1h3nA 878 2.72e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 2hrvA 142 2.79e+01 2hrvA b.47.1.4 26429 1hq0A 295 2.80e+01 1hzgA d.194.1.1 61122 2cx1A 187 2.81e+01 1z60A 59 2.84e+01 2an1A 292 2.84e+01 1vggA 161 2.85e+01 1zlbA 122 2.85e+01 2bhvA 246 2.93e+01 1sefA 274 2.94e+01 b.82.1.11 105452 1g0cA 364 2.95e+01 7a3hA c.1.8.3 60165 1dxsA 80 3.02e+01 1cokA a.60.1.2 17944 1l1dA 152 3.04e+01 b.88.1.3 73452 1yfbA 59 3.07e+01 1tpm 50 3.14e+01 1tpg g.27.1.1 44957 1n12A 138 3.21e+01 b.2.3.2 79779 1qwzA 235 3.24e+01 b.100.1.1 96510 1x31D 99 3.25e+01 1s8iA 121 3.29e+01 a.133.1.2 98735 1mc2A 122 3.30e+01 a.133.1.2 74622 1pk6C 129 3.31e+01 b.22.1.1 94803 2sak 121 3.33e+01 2sak d.15.5.1 37711 1v6pA 62 3.34e+01 2g8yA 385 3.34e+01 1sfp 114 3.39e+01 1sfp b.23.1.1 23895 1s3eA 520 3.41e+01 c.3.1.2,d.16.1.5 98426,98427 1rz2A 254 3.42e+01 b.100.1.1 105130 1iab 200 3.42e+01 1iae d.92.1.8 40312 1cv8 174 3.44e+01 1cv8 d.3.1.1 37089 1k7hA 476 3.51e+01 c.76.1.1 72101 1pueE 89 3.53e+01 1awcA a.4.5.21 16165 1q4gA 553 3.53e+01 a.93.1.2,g.3.11.1 95789,95790 2cszA 76 3.59e+01 2a20A 62 3.60e+01 1m2tB 263 3.65e+01 b.42.2.1,b.42.2.1 84762,84763 7taa 478 3.69e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1a7i 81 3.74e+01 1b8tA g.39.1.3,g.39.1.3 45143,45144 1inp 400 3.75e+01 1inp e.7.1.1 42972 1nv8A 284 3.78e+01 c.66.1.30 86224 2aq5A 402 3.86e+01 1h12A 405 3.97e+01 a.102.1.2 83447 1wjvA 79 4.07e+01 1zxxA 319 4.08e+01 2a6hC 1119 4.10e+01 1uesA 191 4.16e+01 a.2.11.1,d.44.1.1 107798,107799 1dvpA 220 4.23e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2aheA 267 4.27e+01 2gaiA 633 4.28e+01 7a3hA 303 4.31e+01 7a3hA c.1.8.3 28817 1vetA 124 4.33e+01 d.110.7.1 108553 1hn4A 131 4.34e+01 a.133.1.2 65893 2csvA 72 4.49e+01 1rhfA 182 4.52e+01 b.1.1.1,b.1.1.4 97469,97470 1j5pA 253 4.56e+01 d.81.1.3,c.2.1.3 71577,83092 2bwkA 121 4.57e+01 2awpA 198 4.63e+01 1gpr 162 4.65e+01 1gpr b.84.3.1 28267 1zud1 251 4.68e+01 1g9pA 45 4.68e+01 g.3.6.2 65171 1g4wR 383 4.70e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1xiwA 105 4.80e+01 1e4cP 215 4.82e+01 2fua c.74.1.1 34969 1a70 97 4.83e+01 1awd d.15.4.1 37678 1zzpA 130 4.84e+01 1kqfB 294 4.86e+01 d.58.1.5,f.23.22.1 75900,75901 1s1dA 331 4.87e+01 b.67.3.1 98344 1z02A 446 4.93e+01 1q33A 292 4.96e+01 d.113.1.1 95657 1qlpA 394 4.99e+01 1ovaA e.1.1.1 42628 1jg5A 83 5.02e+01 d.205.1.1 66666 1lv3A 68 5.04e+01 g.39.1.9 78231 1olzA 663 5.06e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1o75A 415 5.11e+01 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 1vapA 123 5.15e+01 1poa a.133.1.2 19548 1rc6A 261 5.20e+01 b.82.1.11 97287 1kk1A 410 5.22e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1jltB 122 5.27e+01 a.133.1.2 66868 1vp2A 208 5.28e+01 2g45A 129 5.32e+01 2cxkA 95 5.34e+01 1e5mA 416 5.41e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1weoA 93 5.42e+01 1m2oA 768 5.46e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1gadO 330 5.51e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1s6bB 119 5.52e+01 a.133.1.2 98593 1se0A 116 5.56e+01 g.52.1.1 98814 1latA 82 5.62e+01 2nllB g.39.1.2 45122 1ie9A 259 5.65e+01 1db1A a.123.1.1 62318 1jy5A 212 5.69e+01 d.124.1.1 71940 1vekA 84 5.70e+01 1se7A 83 5.75e+01 1zxtA 76 5.76e+01 1zd8A 227 5.79e+01 1ga3A 113 5.84e+01 1ga3A a.26.1.2 60411 1bds 43 5.85e+01 2bds g.9.1.1 44596 1zsqA 528 5.88e+01 1t9hA 307 5.92e+01 1wvkA 86 6.00e+01 1qbjA 81 6.09e+01 1qbjA a.4.5.19 16155 2a74A 643 6.12e+01 2b5iD 217 6.14e+01 2fqaA 27 6.17e+01 2ak3A 226 6.23e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1o12A 376 6.24e+01 b.92.1.5,c.1.9.10 80758,80759 1ejfA 125 6.27e+01 1ejfA b.15.1.2 23683 1juvA 193 6.28e+01 c.71.1.1 90912 1t6lA 290 6.32e+01 d.131.1.2,d.131.1.2 106574,106575 1k3xA 262 6.33e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1u79A 129 6.33e+01 d.26.1.1 107714 2anxA 146 6.36e+01 2axiA 115 6.36e+01 1fas 61 6.41e+01 3ebx g.7.1.1 44403 1le6A 123 6.46e+01 a.133.1.2 73862 1t61C 227 6.48e+01 d.169.1.6,d.169.1.6 106533,106534 1vpkA 378 6.54e+01 1gqpA 221 6.58e+01 b.18.1.9 70372 2absA 383 6.63e+01 2ctdA 96 6.64e+01 1o7eA 276 6.72e+01 e.3.1.1 92622 1t2dA 322 6.75e+01 c.2.1.5,d.162.1.1 99084,99085 1rjoA 646 6.76e+01 1erjA 393 6.82e+01 1erjA b.69.4.1 27660 1llmC 88 6.85e+01 g.37.1.1,g.37.1.1 91059,91060 1dgwA 178 6.89e+01 1dgwA b.82.1.2 28090 1wflA 74 6.93e+01 1wznA 252 6.93e+01 1yuiA 54 6.94e+01 1yuiA g.37.1.1 45073 1zsoA 164 6.98e+01 1t5rA 284 7.00e+01 f.6.1.1 106465 1pk6A 133 7.00e+01 b.22.1.1 94801 1dg6A 191 7.01e+01 1d4vB b.22.1.1 23883 1vziA 126 7.11e+01 b.1.13.1,g.41.5.2 108967,108968 1rgxA 114 7.12e+01 g.77.1.1 104932 2ahuA 531 7.12e+01 1un3A 123 7.14e+01 d.5.1.1 99646 1zmiA 29 7.20e+01 1q2zA 120 7.27e+01 a.118.19.1 95656 1njqA 39 7.27e+01 g.37.1.3 85822 1fqtA 112 7.30e+01 1fqtA b.33.1.1 24441 1fc6A 388 7.37e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1vyiA 112 7.38e+01 1jfrA 262 7.40e+01 1jfrA c.69.1.16 34724 1wraA 308 7.43e+01 1lm5A 214 7.46e+01 d.211.2.1 74029 1pk6B 132 7.51e+01 b.22.1.1 94802 1kq1A 77 7.54e+01 b.38.1.2 72848 2fclA 169 7.55e+01 1vqoC 246 7.65e+01 1iwmA 186 7.69e+01 b.125.1.2 83758 2avuE 192 7.72e+01 1b25A 619 7.73e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1fd3A 41 7.88e+01 1fd3A g.9.1.1 44572 2bbkL 125 7.89e+01 2bbkL g.21.1.1 44882 2c43A 323 8.00e+01 1nwwA 149 8.07e+01 d.17.4.8 86306 1w6gA 646 8.08e+01 1y9uA 323 8.08e+01 1r61A 207 8.10e+01 c.8.8.1 97138 1szoA 257 8.11e+01 c.14.1.3 106164 1zpwX 90 8.19e+01 1vavA 222 8.22e+01 b.29.1.18 108472 1ovxA 67 8.25e+01 g.39.1.11 93622 2gefA 217 8.28e+01 2eifA 136 8.32e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1ifc 132 8.36e+01 b.60.1.2 27173 2b9dA 52 8.38e+01 1k4nA 192 8.40e+01 d.32.1.5 72059 1yv4A 104 8.46e+01 1zvnA 99 8.47e+01 1kbeA 49 8.52e+01 g.49.1.1 68380 1dl0A 37 8.64e+01 1dl0A g.3.6.2 44112 1hl9A 449 8.67e+01 b.71.1.3,c.1.8.11 90650,90651 1jnrB 150 8.71e+01 d.58.1.5 66969 1e7lA 157 8.75e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1j5uA 136 8.77e+01 d.208.1.1 71584 1ud9A 245 8.80e+01 d.131.1.2,d.131.1.2 107768,107769 1ihoA 283 8.81e+01 1ihoA c.26.1.4 62390 1zxfA 155 8.83e+01 1du9A 28 8.88e+01 g.3.7.2 44148 1m98A 317 8.92e+01 a.175.1.1,d.17.4.6 78866,78867 1qysA 106 8.96e+01 k.41.1.1 96603 1d4oA 184 8.96e+01 1d4oA c.31.1.4 31748