# 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 1.36e-01 1vk6A 269 2.01e-01 d.113.1.4,d.113.1.4 100851,100852 2ct7A 86 3.16e-01 1vckA 115 4.40e-01 2g2kA 170 5.69e-01 1ypvA 313 1.05e+00 1ee8A 266 1.08e+00 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1odhA 174 1.25e+00 d.239.1.1 86850 1jm1A 204 1.68e+00 b.33.1.1 71745 1yk4A 52 1.95e+00 1l1oC 181 2.19e+00 b.40.4.3 73480 1mswD 883 2.39e+00 e.8.1.3 79427 2cklB 165 2.46e+00 1dzlA 505 2.52e+00 1dzlA b.121.6.1 23586 1rfs 139 2.82e+00 1rfs b.33.1.1 24434 1rlyA 60 2.90e+00 g.41.3.1 104988 1ywzA 175 2.92e+00 1iro 54 3.19e+00 1rb9 g.41.5.1 45223 1rb9 53 3.38e+00 1rb9 g.41.5.1 45214 1k82A 268 3.39e+00 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1neeA 138 3.48e+00 d.241.1.1,g.59.1.1 91841,91842 1woyA 500 3.63e+00 1ptq 50 3.68e+00 1ptq g.49.1.1 45349 1d0qA 103 3.79e+00 1d0qA g.41.3.2 45208 1fp0A 88 4.28e+00 1fp0A g.50.1.2 45361 1v54F 98 4.28e+00 g.41.5.3 100327 1pcxA 810 4.37e+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 2fqpA 97 4.62e+00 1u8bA 133 4.73e+00 1k8kA 418 5.18e+00 c.55.1.1,c.55.1.1 68305,68306 1qqqA 264 5.18e+00 1bkpA d.117.1.1 40931 1qxfA 66 5.33e+00 g.41.8.4 96527 1rdg 53 5.41e+00 1rb9 g.41.5.1 45221 1wd2A 60 5.61e+00 g.44.1.1 109232 1fs7A 485 5.64e+00 1qdbA a.138.1.3 19691 2g8mA 264 5.78e+00 2g8oA 264 5.85e+00 1pxvA 183 6.19e+00 d.3.1.1 95301 1ww8A 439 6.40e+00 1rutX 188 6.41e+00 2cy5A 140 6.43e+00 1brfA 53 6.81e+00 1rb9 g.41.5.1 45236 1nykA 165 7.09e+00 b.33.1.1 86408 1g4iA 123 7.12e+00 1poa a.133.1.2 60241 1twfI 122 7.20e+00 1vd4A 62 7.30e+00 1kmtA 141 7.32e+00 b.1.18.8 77442 1vq0A 302 7.57e+00 1ew4A 106 8.63e+00 1ew4A d.82.2.1 40023 1dusA 194 8.76e+00 1dusA c.66.1.4 34182 1wrvA 308 9.28e+00 1dxgA 36 9.43e+00 1dxgA g.41.5.2 45247 2a1rA 430 9.66e+00 1gvjA 146 9.67e+00 a.4.5.21 90525 1qwtA 255 9.85e+00 b.26.1.3 96501 1yc5A 246 9.98e+00 6rxn 46 1.02e+01 1rb9 g.41.5.1 45222 1lj5A 379 1.02e+01 e.1.1.1 73928 1vhqA 232 1.04e+01 c.23.16.2 100696 1n6zA 105 1.04e+01 d.263.1.1 85369 1k1eA 180 1.05e+01 c.108.1.5 67995 1mr1C 99 1.12e+01 d.217.1.2 79420 1p32A 209 1.14e+01 1p32A d.25.1.1 38379 1rmd 116 1.14e+01 1rmd g.37.1.1,g.44.1.1 45025,45322 1ji1A 637 1.18e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1uh4A 637 1.18e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1t0bA 252 1.19e+01 c.23.16.6 106199 1lkoA 191 1.24e+01 a.25.1.1,g.41.5.1 78063,78064 1g8kB 133 1.27e+01 1g8jB b.33.1.1 24435 1k0mA 241 1.28e+01 a.45.1.1,c.47.1.5 67949,67950 1jgsA 138 1.31e+01 a.4.5.28 66683 1y4lA 121 1.35e+01 1pfvA 551 1.36e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1tp6A 128 1.38e+01 d.17.4.12 107184 1p5vA 235 1.39e+01 b.1.11.1,b.7.2.1 87812,87813 1ayoA 130 1.40e+01 1ayoA b.2.4.1 22431 1ur6B 52 1.40e+01 g.44.1.1 99812 1zin 217 1.40e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1r6lA 239 1.41e+01 d.14.1.4,d.101.1.1 97153,97154 1yxlA 119 1.46e+01 1y4hA 188 1.51e+01 1x75A 132 1.53e+01 1wfeA 86 1.64e+01 1s6bA 119 1.65e+01 a.133.1.2 98592 1ww9A 392 1.67e+01 1m2kA 249 1.69e+01 c.31.1.5 84754 1u3eM 174 1.69e+01 d.4.1.3,d.285.1.1 107640,107641 1qbjA 81 1.71e+01 1qbjA a.4.5.19 16155 1wxiA 275 1.78e+01 2fe5A 94 1.79e+01 1pvmA 184 1.80e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1l8dA 112 1.81e+01 h.4.12.1 73687 2cklA 108 1.82e+01 1qz5A 375 1.83e+01 c.55.1.1,c.55.1.1 96614,96615 3daaA 277 1.83e+01 1daaA e.17.1.1 43272 2d8vA 67 1.83e+01 1iyeA 309 1.94e+01 e.17.1.1 83786 1vrmA 325 1.94e+01 1y13A 181 1.95e+01 1mea 28 2.00e+01 g.41.1.1 45176 1cv8 174 2.01e+01 1cv8 d.3.1.1 37089 1jltA 122 2.02e+01 a.133.1.2 66867 2bx9A 53 2.03e+01 1yt5A 258 2.05e+01 1r2zA 274 2.07e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2dasA 62 2.08e+01 1r8oB 71 2.09e+01 1xakA 83 2.17e+01 7taa 478 2.17e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1a78A 134 2.22e+01 1c1lA b.29.1.3 24212 1q35A 320 2.24e+01 c.94.1.1 95661 1r5mA 425 2.26e+01 2au3A 407 2.33e+01 1wvkA 86 2.34e+01 1tpm 50 2.35e+01 1tpg g.27.1.1 44957 1cojA 212 2.38e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2sak 121 2.38e+01 2sak d.15.5.1 37711 2iu4A 336 2.39e+01 2g58A 121 2.40e+01 1dgfA 497 2.44e+01 1cf9A e.5.1.1 42782 1cbs 137 2.50e+01 1hmt b.60.1.2 27201 2fxuA 375 2.53e+01 1g6aA 271 2.56e+01 1btl e.3.1.1 42704 1zu0A 529 2.60e+01 1sfp 114 2.67e+01 1sfp b.23.1.1 23895 1vfyA 73 2.68e+01 1vfyA g.50.1.1 45357 2bwkA 121 2.71e+01 1vphA 149 2.71e+01 1j5pA 253 2.75e+01 d.81.1.3,c.2.1.3 71577,83092 2aheA 267 2.76e+01 1a70 97 2.79e+01 1awd d.15.4.1 37678 2c43A 323 2.80e+01 1xd3A 230 2.80e+01 1z4rA 168 2.82e+01 2bhvA 246 2.88e+01 1s3eA 520 2.89e+01 c.3.1.2,d.16.1.5 98426,98427 2eu8A 216 2.98e+01 1q33A 292 2.99e+01 d.113.1.1 95657 1z6uA 150 3.01e+01 1wjpA 107 3.01e+01 2fclA 169 3.02e+01 1dxsA 80 3.02e+01 1cokA a.60.1.2 17944 1z60A 59 3.06e+01 1k7cA 233 3.07e+01 c.23.10.4 68267 2a20A 62 3.12e+01 1uesA 191 3.24e+01 a.2.11.1,d.44.1.1 107798,107799 1whvA 100 3.25e+01 1s8iA 121 3.29e+01 a.133.1.2 98735 1bnb 38 3.37e+01 1bnb g.9.1.1 44592 2cjsC 62 3.45e+01 2airB 153 3.45e+01 1v54D 147 3.51e+01 f.23.1.1 100325 1un3A 123 3.51e+01 d.5.1.1 99646 1g5aA 628 3.51e+01 b.71.1.1,c.1.8.1 65152,65153 2evrA 246 3.56e+01 1ti6B 274 3.62e+01 b.3.5.1,d.58.1.5 106976,106977 1mc2A 122 3.64e+01 a.133.1.2 74622 1j5wA 298 3.69e+01 d.104.1.1 71589 1ie9A 259 3.76e+01 1db1A a.123.1.1 62318 1h3nA 878 3.80e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1hyeA 313 3.82e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1l1dA 152 3.84e+01 b.88.1.3 73452 2b5iD 217 3.85e+01 1yfbA 59 3.85e+01 2anxA 146 3.91e+01 1ifc 132 3.92e+01 b.60.1.2 27173 1zlbA 122 3.92e+01 2an1A 292 3.93e+01 1pk6C 129 3.93e+01 b.22.1.1 94803 1weoA 93 3.98e+01 1eajA 126 4.04e+01 1f5wA b.1.1.1 59401 2cx1A 187 4.04e+01 1wijA 140 4.04e+01 1n62B 809 4.05e+01 d.41.1.1,d.133.1.1 80092,80093 1gqvA 135 4.09e+01 d.5.1.1 70376 1o7eA 276 4.12e+01 e.3.1.1 92622 1zzpA 130 4.14e+01 1yovA 537 4.19e+01 1erjA 393 4.23e+01 1erjA b.69.4.1 27660 1hn4A 131 4.30e+01 a.133.1.2 65893 1vm9A 111 4.31e+01 b.33.1.1 108886 1dvpA 220 4.34e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1qwzA 235 4.37e+01 b.100.1.1 96510 1v6pA 62 4.37e+01 1pueE 89 4.38e+01 1awcA a.4.5.21 16165 1w9aA 147 4.41e+01 2fiyA 309 4.49e+01 2gu2A 312 4.50e+01 1inp 400 4.52e+01 1inp e.7.1.1 42972 1vggA 161 4.52e+01 2g8yA 385 4.60e+01 1kq1A 77 4.66e+01 b.38.1.2 72848 1mtyD 512 4.70e+01 1mhyD a.25.1.2 16742 1z02A 446 4.70e+01 2h58A 330 4.72e+01 2hrvA 142 4.81e+01 2hrvA b.47.1.4 26429 1rz2A 254 4.81e+01 b.100.1.1 105130 1kk1A 410 4.85e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2aq5A 402 4.87e+01 2bwfA 77 4.92e+01 2fm8A 135 5.01e+01 2csvA 72 5.02e+01 2awpA 198 5.02e+01 1b77A 228 5.10e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1yv4A 104 5.16e+01 1juvA 193 5.21e+01 c.71.1.1 90912 2aq6A 147 5.21e+01 1al3 324 5.25e+01 1al3 c.94.1.1 35835 1h12A 405 5.26e+01 a.102.1.2 83447 1qlpA 394 5.28e+01 1ovaA e.1.1.1 42628 1ryqA 69 5.34e+01 g.41.9.3 105126 1s5aA 150 5.34e+01 d.17.4.10 98525 1ia9A 280 5.36e+01 1ia9A d.144.1.5 62113 1upiA 225 5.37e+01 b.82.1.1 99757 1tdzA 272 5.45e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1fc6A 388 5.46e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1iv8A 720 5.47e+01 b.71.1.1,c.1.8.1 76842,76843 1s1dA 331 5.49e+01 b.67.3.1 98344 1ldjA 760 5.50e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1dl0A 37 5.53e+01 1dl0A g.3.6.2 44112 1nv8A 284 5.57e+01 c.66.1.30 86224 1vp2A 208 5.66e+01 1jfrA 262 5.78e+01 1jfrA c.69.1.16 34724 2avuE 192 5.81e+01 2bhwA 232 5.81e+01 2axcA 264 5.90e+01 1ekgA 127 5.93e+01 1dlxA d.82.2.1 40021 1x31D 99 6.00e+01 1gadO 330 6.03e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1lm5A 214 6.06e+01 d.211.2.1 74029 2a74A 643 6.07e+01 1zud1 251 6.10e+01 1jnrB 150 6.12e+01 d.58.1.5 66969 1g0cA 364 6.16e+01 7a3hA c.1.8.3 60165 1rwzA 245 6.19e+01 d.131.1.2,d.131.1.2 98005,98006 1ga3A 113 6.21e+01 1ga3A a.26.1.2 60411 1vetA 124 6.22e+01 d.110.7.1 108553 1k7hA 476 6.24e+01 c.76.1.1 72101 1m2tB 263 6.28e+01 b.42.2.1,b.42.2.1 84762,84763 1rhfA 182 6.32e+01 b.1.1.1,b.1.1.4 97469,97470 1wjvA 79 6.33e+01 1hq0A 295 6.35e+01 1hzgA d.194.1.1 61122 1vapA 123 6.38e+01 1poa a.133.1.2 19548 2gaiA 633 6.49e+01 1kqfB 294 6.63e+01 d.58.1.5,f.23.22.1 75900,75901 1e7lA 157 6.65e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 2cxkA 95 6.69e+01 1u00A 227 6.69e+01 1hl9A 449 6.80e+01 b.71.1.3,c.1.8.11 90650,90651 1rjoA 646 6.84e+01 1ud9A 245 6.84e+01 d.131.1.2,d.131.1.2 107768,107769 1yfnA 118 6.86e+01 1gpr 162 6.87e+01 1gpr b.84.3.1 28267 1mvfD 82 6.89e+01 b.129.1.1 85143 1ma3A 253 6.94e+01 c.31.1.5 78883 1ogdA 131 6.96e+01 c.133.1.1 92893 1ri6A 343 7.03e+01 b.69.11.1 97503 1njqA 39 7.11e+01 g.37.1.3 85822 1u79A 129 7.12e+01 d.26.1.1 107714 1se0A 116 7.22e+01 g.52.1.1 98814 2ctdA 96 7.22e+01 1u5kA 244 7.33e+01 1tygB 87 7.34e+01 d.15.3.2 107455 1vheA 373 7.36e+01 b.49.3.1,c.56.5.4 100669,100670 1f3vA 179 7.37e+01 1f3vA d.58.22.1 39382 1o12A 376 7.46e+01 b.92.1.5,c.1.9.10 80758,80759 2eifA 136 7.56e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1jr7A 311 7.57e+01 b.82.2.3 63255 1g9pA 45 7.60e+01 g.3.6.2 65171 1hcnB 145 7.75e+01 1hcnB g.17.1.4 44810 2h1tA 188 7.80e+01 1w66A 232 7.85e+01 1zsqA 528 7.86e+01 2bhoA 130 7.89e+01 1t61C 227 7.90e+01 d.169.1.6,d.169.1.6 106533,106534 1n12A 138 7.92e+01 b.2.3.2 79779 1y9uA 323 7.97e+01 1e4cP 215 8.03e+01 2fua c.74.1.1 34969 2a6hC 1119 8.11e+01 2ahuA 531 8.17e+01 1m2oA 768 8.20e+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 2bbkL 125 8.20e+01 2bbkL g.21.1.1 44882 1agi 125 8.21e+01 7rsa d.5.1.1 37303 1t2jA 116 8.22e+01 1nwwA 149 8.32e+01 d.17.4.8 86306 2ftwA 521 8.39e+01 1yuiA 54 8.42e+01 1yuiA g.37.1.1 45073 1wflA 74 8.43e+01 1zxxA 319 8.47e+01 1t2dA 322 8.56e+01 c.2.1.5,d.162.1.1 99084,99085 2iv2X 715 8.63e+01 1yqdA 366 8.63e+01 2ghsA 326 8.66e+01 1jltB 122 8.69e+01 a.133.1.2 66868 1ul4A 94 8.69e+01 g.72.1.1 99538 1io1A 398 8.81e+01 1io1A e.32.1.1 62611 1rgxA 114 8.82e+01 g.77.1.1 104932 1w6gA 646 8.82e+01 1mqkH 127 8.82e+01 b.1.1.1 85053 1m22A 503 8.82e+01 c.117.1.1 78464 1fjgT 106 8.86e+01 1fjfT a.7.6.1 16338 1llmC 88 8.87e+01 g.37.1.1,g.37.1.1 91059,91060 1se7A 83 8.90e+01 1e5mA 416 8.96e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1qysA 106 9.00e+01 k.41.1.1 96603