# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 1ne9A 335 5.47e-04 d.108.1.4,d.108.1.4 91839,91840 1mk4A 157 9.86e-04 d.108.1.1 84979 2fe7A 166 4.14e-03 1z4eA 153 1.41e-02 1s3zA 165 5.52e-02 d.108.1.1 105250 1tiqA 180 6.47e-02 d.108.1.1 107010 1v93A 296 7.24e-02 c.1.23.1 100532 2aj6A 159 7.98e-02 2d4pA 141 9.22e-02 1sqhA 312 1.44e-01 d.108.1.5 98966 2ge3A 170 1.89e-01 1vhsA 175 2.30e-01 d.108.1.1 100698 1yvoA 172 2.89e-01 1cjwA 166 3.04e-01 1cjwA d.108.1.1 40818 1zu4A 320 3.70e-01 1a53 247 4.82e-01 1a53 c.1.2.4 28564 1z4rA 168 5.29e-01 1xtmA 175 6.11e-01 1s4iA 175 7.14e-01 2dbyA 368 7.23e-01 2fl4A 149 7.38e-01 1m65A 245 8.04e-01 c.6.3.1 84847 1iicA 422 8.25e-01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2cy2A 174 8.32e-01 1wwzA 159 9.03e-01 1yx0A 159 9.13e-01 1n71A 180 1.09e+00 d.108.1.1 85370 2atrA 138 1.13e+00 2b5gA 171 1.18e+00 1zbfA 142 1.30e+00 1p0hA 318 1.45e+00 d.108.1.1 93866 2c71A 216 1.48e+00 1mf7A 194 1.68e+00 c.62.1.1 84937 1y80A 210 1.79e+00 1lw7A 365 1.97e+00 c.26.1.3,c.37.1.1 74295,74296 1u9iA 519 2.47e+00 1pq1A 196 2.58e+00 f.1.4.1 94986 2c27A 315 2.62e+00 2ae6A 166 2.65e+00 1yx1A 264 2.95e+00 1vqzA 341 3.01e+00 1dkuA 317 3.08e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 2aeuA 374 3.15e+00 1qjcA 158 3.27e+00 1b6tA c.26.1.3 63328 1qstA 160 3.43e+00 1yghA d.108.1.1 40804 1jflA 228 3.59e+00 c.78.2.1,c.78.2.1 71656,71657 2ganA 190 3.63e+00 2beiA 170 4.03e+00 1usyA 275 4.12e+00 1qlmA 316 4.19e+00 1qlmA d.147.1.1 41765 1m5wA 243 4.25e+00 c.1.24.1 84836 2a1hA 365 4.37e+00 1nu5A 370 4.44e+00 c.1.11.2,d.54.1.1 92183,92184 1k8kD 300 4.51e+00 d.198.2.1,d.198.2.1 68309,68310 1puiA 210 4.54e+00 c.37.1.8 88292 1nnwA 252 4.59e+00 d.159.1.5 80674 1b0uA 262 4.66e+00 1b0uA c.37.1.12 32370 1i12A 160 4.76e+00 1i21A d.108.1.1 61515 1h09A 338 4.83e+00 b.109.1.1,c.1.8.8 83420,83421 1yf3A 259 4.87e+00 1w0mA 226 4.99e+00 c.1.1.1 109027 1vl2A 421 5.11e+00 c.26.2.1,d.210.1.1 108708,108709 2gtrA 261 5.31e+00 2bllA 345 5.41e+00 1m4iA 181 5.54e+00 d.108.1.1 74457 1nf2A 268 5.66e+00 c.108.1.10 91849 1u94A 356 5.67e+00 c.37.1.11,d.48.1.1 107743,107744 1wo8A 126 5.74e+00 1bo4A 168 5.92e+00 1bo4A d.108.1.1 40798 1u0mA 382 6.68e+00 c.95.1.2,c.95.1.2 107557,107558 1yrtA 364 6.80e+00 1ad2 228 6.80e+00 1ad2 e.24.1.1 43353 1ohlA 342 7.57e+00 c.1.10.3 87035 1e9rA 437 7.80e+00 c.37.1.11 64827 1od6A 160 8.39e+00 c.26.1.3 86836 1s7kA 182 8.46e+00 1wnaA 131 8.85e+00 1zavA 180 8.86e+00 2rslA 140 9.13e+00 2rslA c.53.1.1 33345 1p1xA 260 9.30e+00 c.1.10.1 104060 1exqA 154 9.45e+00 1b9dA c.55.3.2 33646 1g55A 343 9.47e+00 1g55A c.66.1.26 34247 1vkcA 158 1.00e+01 1e3oC 160 1.02e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1z41A 338 1.04e+01 1zp4A 304 1.06e+01 1wkyA 464 1.06e+01 2f1rA 171 1.08e+01 1vc4A 254 1.08e+01 c.1.2.4 100557 2cvhA 220 1.11e+01 1v6tA 255 1.12e+01 1v9sA 208 1.14e+01 1t9hA 307 1.16e+01 1yz4A 160 1.19e+01 2czlA 272 1.20e+01 2b67A 204 1.20e+01 1lvaA 258 1.23e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1vmeA 410 1.23e+01 c.23.5.1,d.157.1.3 108893,108894 1j0dA 341 1.24e+01 c.79.1.1 83902 1yirA 408 1.25e+01 1uxoA 192 1.26e+01 c.69.1.31 108121 1xmtA 103 1.27e+01 1vjgA 218 1.31e+01 c.23.10.6 100810 2f7tA 227 1.34e+01 1o6zA 303 1.36e+01 c.2.1.5,d.162.1.1 81107,81108 1bykA 255 1.45e+01 1bykA c.93.1.1 35706 1yemA 179 1.52e+01 1q2yA 140 1.53e+01 d.108.1.1 95655 2ck3D 482 1.53e+01 1jljA 189 1.56e+01 c.57.1.1 63169 1wfxA 186 1.57e+01 1onrA 316 1.62e+01 1onrA c.1.10.1 29169 2ftwA 521 1.64e+01 1vliA 385 1.64e+01 b.85.1.1,c.1.10.6 108830,108831 1kaeA 434 1.65e+01 c.82.1.2 72247 1ockA 412 1.66e+01 c.117.1.1 86802 1qz5A 375 1.68e+01 c.55.1.1,c.55.1.1 96614,96615 1tp9A 162 1.72e+01 1w9gA 104 1.73e+01 1wy7A 207 1.75e+01 2b5dX 528 1.77e+01 1vmfA 145 1.79e+01 2c8vA 288 1.80e+01 1auiB 169 1.80e+01 1auiB a.39.1.5 17325 1zbqA 327 1.81e+01 1wkbA 810 1.83e+01 1xp8A 366 1.90e+01 1yt3A 375 1.92e+01 1px5A 349 1.93e+01 a.160.1.2,d.218.1.6 95277,95278 1t95A 240 1.93e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2fggA 101 1.94e+01 1o04A 500 1.95e+01 c.82.1.1 86508 1oi2A 366 1.97e+01 c.119.1.2 103802 1bd3A 243 1.99e+01 1bd3A c.61.1.1 34098 1kblA 873 1.99e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1qf8A 182 2.00e+01 1qf8A g.41.4.1 45212 1cfr 285 2.02e+01 1cfr c.52.1.7 33312 1yqdA 366 2.03e+01 1u9lA 70 2.05e+01 a.60.4.2 107751 1uh5A 329 2.06e+01 c.2.1.2 107840 2fxuA 375 2.11e+01 1xo0A 324 2.13e+01 1o66A 275 2.17e+01 c.1.12.8 92547 1h8eD 482 2.18e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1agjA 242 2.20e+01 1agjA b.47.1.1 25827 1m1nA 491 2.21e+01 c.92.2.3 78417 1lehA 364 2.27e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 2faoA 309 2.29e+01 1l2tA 235 2.29e+01 c.37.1.12 73514 1qsmA 152 2.34e+01 1qsmA d.108.1.1 40808 1es9A 232 2.34e+01 1wab c.23.10.3 31340 1mg7A 417 2.35e+01 d.14.1.6,d.58.26.6 84954,84955 2bswA 146 2.37e+01 7a3hA 303 2.38e+01 7a3hA c.1.8.3 28817 1lrzA 426 2.40e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1mbyA 88 2.41e+01 d.223.1.1 78931 1gx1A 160 2.47e+01 d.79.5.1 70675 1zoiA 276 2.48e+01 1hqz1 141 2.55e+01 1zwwA 256 2.55e+01 2fp8A 322 2.59e+01 1muwA 386 2.61e+01 c.1.15.3 79495 1pgvA 197 2.62e+01 c.10.1.1 88073 1uanA 227 2.71e+01 c.134.1.1 99135 1oj4A 283 2.72e+01 d.14.1.5,d.58.26.5 93083,93084 2f2gA 221 2.75e+01 1gw5S 142 2.76e+01 d.110.4.2 70633 2arzA 247 2.80e+01 1zy9A 564 2.89e+01 2fh1A 344 2.89e+01 5nul 138 2.90e+01 5nul c.23.5.1 31191 1yhtA 367 2.91e+01 1x88A 359 2.91e+01 2b0cA 206 2.95e+01 1hjrA 158 2.98e+01 1hjrA c.55.3.6 33727 1mwpA 96 2.99e+01 1mwpA d.170.2.1 42453 1e8cA 498 3.03e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1wyzA 242 3.03e+01 2f46A 156 3.04e+01 1nmoA 247 3.05e+01 c.135.1.1 91980 1b8dA 164 3.10e+01 1cpcA a.1.1.3 15665 1f5nA 592 3.13e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1d5rA 324 3.13e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1qo7A 394 3.17e+01 1qo7A c.69.1.11 34697 1khyA 148 3.20e+01 a.174.1.1 77410 1koe 172 3.21e+01 1koe d.169.1.5 42448 1h7sA 365 3.22e+01 d.14.1.3,d.122.1.2 65705,65706 1poiA 317 3.26e+01 1poiA c.124.1.2 34153 2g40A 224 3.26e+01 1e5mA 416 3.29e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1y9wA 140 3.30e+01 1izcA 339 3.31e+01 c.1.12.5 83838 1p4cA 380 3.32e+01 c.1.4.1 94100 1xfcA 384 3.39e+01 1ytvA 366 3.39e+01 2ew8A 249 3.40e+01 1p7gA 222 3.43e+01 a.2.11.1,d.44.1.1 94223,94224 1gs5A 258 3.58e+01 c.73.1.2 70395 2b3yA 888 3.63e+01 1m2xA 223 3.68e+01 d.157.1.1 84764 1dzkA 157 3.84e+01 1obpA b.60.1.1 27096 1zo0A 126 3.85e+01 1qv9A 283 3.87e+01 c.127.1.1 96356 1vmaA 306 3.88e+01 a.24.13.1,c.37.1.10 108887,108888 1twyA 290 3.90e+01 1wj5A 120 3.93e+01 1gkpA 458 3.94e+01 b.92.1.3,c.1.9.6 70231,70232 1z47A 355 3.95e+01 1earA 147 4.00e+01 b.107.1.1,d.58.38.1 64875,64876 1ohpA 125 4.09e+01 2b69A 343 4.12e+01 1mw7A 240 4.16e+01 e.39.1.1 79557 2b8nA 429 4.19e+01 2fcr 173 4.24e+01 1rcf c.23.5.1 31151 1rzuA 485 4.25e+01 c.87.1.8 105140 2dri 271 4.26e+01 2dri c.93.1.1 35637 1vr6A 350 4.32e+01 2ge7A 108 4.33e+01 1zxxA 319 4.35e+01 1rlzA 369 4.37e+01 c.31.1.1 104989 1n6zA 105 4.39e+01 d.263.1.1 85369 1kg0C 136 4.40e+01 d.169.1.1 72445 1dxeA 256 4.42e+01 1dxeA c.1.12.5 29310 1k8kB 394 4.45e+01 c.55.1.1 68307 1vk0A 206 4.56e+01 c.55.3.5 100839 1l8aA 886 4.58e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1h1dA 221 4.61e+01 c.66.1.1 83452 2gdzA 267 4.69e+01 1pjcA 361 4.74e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1ls1A 295 4.76e+01 a.24.13.1,c.37.1.10 78170,78171 2b8eA 273 4.77e+01 1xngA 268 4.79e+01 2f6kA 307 4.80e+01 1bif 469 4.82e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1o4wA 147 4.84e+01 c.120.1.1 86629 1anf 370 4.89e+01 4mbp c.94.1.1 35776 1ukfA 188 4.95e+01 d.3.1.10 99488 1zzmA 259 4.96e+01 1y7rA 133 4.96e+01 1jihA 531 4.98e+01 d.240.1.1,e.8.1.7 90374,90375 2bhoA 130 4.98e+01 1mkmA 249 4.99e+01 a.4.5.33,d.110.2.2 79242,79243 2cwkA 160 5.04e+01 1wdiA 345 5.04e+01 1t4oA 117 5.05e+01 d.50.1.1 106425 1r6wA 322 5.06e+01 c.1.11.2,d.54.1.1 97165,97166 1uok 558 5.09e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1wlyA 333 5.09e+01 1kpf 126 5.12e+01 1kpf d.13.1.1 37507 1b5fA 239 5.12e+01 1smrA b.50.1.2 26836 1xkpC 143 5.13e+01 1yrbA 262 5.14e+01 2b06A 155 5.14e+01 1i19A 561 5.14e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1s99A 200 5.14e+01 1cnv 299 5.15e+01 1cnv c.1.8.5 28989 1ynpA 317 5.19e+01 1af7 274 5.20e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1o0yA 260 5.25e+01 c.1.10.1 80756 2bhuA 602 5.29e+01 1sz2A 332 5.33e+01 1pea 385 5.36e+01 1pea c.93.1.1 35662 1np6A 174 5.38e+01 c.37.1.10 85954 2akzA 439 5.38e+01 1w1hA 151 5.39e+01 1rqpA 299 5.40e+01 b.141.1.1,c.132.1.1 97754,97755 1l7dA 384 5.42e+01 c.2.1.4,c.23.12.2 77774,77775 2d2eA 250 5.43e+01 2bjuA 453 5.44e+01 1h16A 759 5.49e+01 c.7.1.1 76462 1tw9A 206 5.56e+01 a.45.1.1,c.47.1.5 107381,107382 1yksA 440 5.63e+01 1t0fA 276 5.72e+01 1n7kA 234 5.73e+01 c.1.10.1 85374 1wn5A 130 5.85e+01 1gpmA 525 5.85e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1h4xA 117 5.89e+01 1auz c.13.2.1 60626 1gvfA 286 5.89e+01 c.1.10.2 70599 1lucA 355 6.03e+01 1lucA c.1.16.1 29547 1oh0A 131 6.06e+01 d.17.4.3 87004 1zvdA 380 6.08e+01 1zhvA 134 6.12e+01 2fp7B 172 6.14e+01 2fp4B 395 6.14e+01 1x67A 146 6.16e+01 1fm0D 81 6.18e+01 1fmaD d.15.3.1 37642 1tqhA 247 6.19e+01 c.69.1.29 107225 1pvtA 238 6.23e+01 c.74.1.1 95189 1chd 203 6.27e+01 1chd c.40.1.1 32478 1b93A 152 6.31e+01 1b93A c.24.1.2 31507 1t2dA 322 6.46e+01 c.2.1.5,d.162.1.1 99084,99085 1wxcB 134 6.48e+01 2gm5A 139 6.56e+01 2ab5A 269 6.56e+01 1cg2A 393 6.57e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1ej0A 180 6.66e+01 1ej0A c.66.1.2 34179 1rq2A 382 6.68e+01 c.32.1.1,d.79.2.1 105048,105049 1sgjA 284 6.70e+01 c.1.12.5 105535 1kgdA 180 6.72e+01 c.37.1.1 68582 1n1bA 549 6.75e+01 a.102.4.1,a.128.1.3 79799,79800 1qlwA 328 6.76e+01 1qlwA c.69.1.15 34722 1u7lA 392 6.79e+01 1uwfA 158 6.79e+01 1gsa 316 6.84e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1szoA 257 6.94e+01 c.14.1.3 106164 1u46A 291 7.01e+01 d.144.1.7 107656 1pe1A 267 7.08e+01 c.1.10.4 94591 2akoA 251 7.09e+01 1drw 273 7.10e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1t64A 377 7.15e+01 c.42.1.2 106543 1auoA 218 7.23e+01 1auoA c.69.1.14 34716 1xttA 216 7.33e+01 1xvqA 175 7.43e+01 1wduA 245 7.44e+01 d.151.1.1 109286 1u8zA 168 7.46e+01 1d4xG 126 7.49e+01 1d0nA d.109.1.1 59109 1jysA 242 7.49e+01 c.56.2.1 77216 1xebA 150 7.56e+01 1ne2A 200 7.62e+01 c.66.1.32 85586 1o0sA 605 7.65e+01 c.2.1.7,c.58.1.3 86540,86541 1qwkA 317 7.69e+01 c.1.7.1 96482 2g5cA 281 7.73e+01 2fz4A 237 7.74e+01 1wvgA 359 7.80e+01 1p5dX 463 7.88e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2sfa 191 7.97e+01 1qq4A b.47.1.1 25815 2agaA 190 8.00e+01 1gppA 237 8.06e+01 b.86.1.2 76262 1q60A 99 8.10e+01 2au3A 407 8.11e+01 2chnA 716 8.12e+01 1gheA 177 8.14e+01 d.108.1.1 76222 1bia 321 8.16e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1v7rA 186 8.21e+01 c.51.4.1 100482 1f2tB 148 8.24e+01 1f2tB 1ykwA 435 8.26e+01 1ydgA 211 8.27e+01 1y2kA 349 8.31e+01 1k8kA 418 8.32e+01 c.55.1.1,c.55.1.1 68305,68306 1tjyA 316 8.32e+01 c.93.1.1 107062 2co5A 99 8.34e+01 2bsjA 133 8.35e+01 1p8xA 344 8.36e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2d13A 227 8.41e+01 2bgkA 278 8.44e+01 1x3lA 440 8.48e+01 1t6t1 118 8.48e+01 1khtA 192 8.51e+01 c.37.1.1 84401 1zbpA 273 8.56e+01 1bdb 277 8.66e+01 1bdb c.2.1.2 29874 1lh0A 213 8.66e+01 c.61.1.1 73896 1u53A 196 8.74e+01 1oboA 169 8.76e+01 c.23.5.1 86776 1lc5A 364 8.79e+01 c.67.1.1 73827 1nar 290 8.86e+01 1nar c.1.8.5 28988 1brt 277 8.88e+01 1brt c.69.1.12 34699 1x1tA 260 8.88e+01 1u0jA 267 8.88e+01 c.37.1.20 107546 1h2wA 710 8.95e+01 b.69.7.1,c.69.1.4 76596,76597