# 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 1fp1D 372 1.18e-01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1atg 231 1.81e-01 1atg c.94.1.1 35834 1ispA 181 5.26e-01 c.69.1.18 76778 1tib 269 7.77e-01 3tgl c.69.1.17 34738 1vjvA 415 1.18e+00 d.3.1.9 108632 1u0sA 86 1.48e+00 d.58.24.1 107565 1cydA 244 2.02e+00 1cydA c.2.1.2 29825 2f9sA 151 2.04e+00 1xocA 520 2.39e+00 1t6nA 220 2.59e+00 c.37.1.19 106576 1zghA 260 2.63e+00 1amf 233 2.90e+00 1wod c.94.1.1 35833 1qtqA 553 2.96e+00 1gtrA b.53.1.2,c.26.1.1 26940,31579 2cg4A 152 3.02e+00 1qlmA 316 3.72e+00 1qlmA d.147.1.1 41765 2g0wA 296 3.76e+00 2b4vA 468 3.84e+00 2g6tA 306 4.45e+00 1k87A 669 4.59e+00 a.176.1.1,c.1.23.2 77286,77287 1xu9A 286 4.96e+00 2a10A 125 5.00e+00 2f4iA 197 5.37e+00 1uarA 285 5.38e+00 c.46.1.2,c.46.1.2 107762,107763 1t95A 240 5.48e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1st9A 143 5.75e+00 c.47.1.10 98987 1spxA 278 5.98e+00 c.2.1.2 98958 1rg9A 383 6.32e+00 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1h4vB 421 6.36e+00 1adjA c.51.1.1,d.104.1.1 60624,60625 1wekA 217 6.53e+00 1v72A 356 6.72e+00 1eluA 390 6.77e+00 1elqA c.67.1.3 34434 1pbjA 125 7.18e+00 d.37.1.1,d.37.1.1 94414,94415 1x9iA 302 8.45e+00 1ys7A 233 8.53e+00 1cjwA 166 8.62e+00 1cjwA d.108.1.1 40818 2ck3D 482 8.69e+00 1j5xA 342 8.73e+00 c.80.1.1 71591 1mzhA 225 8.80e+00 c.1.10.1 79698 1tca 317 9.48e+00 1tca c.69.1.17 34726 1zn6A 227 9.60e+00 1tqyB 415 1.01e+01 c.95.1.1,c.95.1.1 107247,107248 1ww8A 439 1.03e+01 1es9A 232 1.08e+01 1wab c.23.10.3 31340 1whvA 100 1.11e+01 1fxlA 167 1.12e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1iugA 352 1.14e+01 c.67.1.3 90699 1obbA 480 1.17e+01 c.2.1.5,d.162.1.2 86760,86761 1khbA 625 1.21e+01 c.91.1.1,c.109.1.1 68606,68607 1o4sA 389 1.22e+01 c.67.1.1 86620 1x1oA 286 1.26e+01 1jetA 517 1.29e+01 1jevA c.94.1.1 35718 1q9uA 130 1.36e+01 d.129.7.1 96314 1t5hX 504 1.38e+01 e.23.1.1 106449 1qwkA 317 1.39e+01 c.1.7.1 96482 2g40A 224 1.39e+01 2ew2A 316 1.44e+01 1yqgA 263 1.48e+01 1zavA 180 1.48e+01 2a2fX 325 1.51e+01 1h2eA 207 1.53e+01 c.60.1.1 70857 2c2xA 281 1.53e+01 1u5tB 169 1.56e+01 a.4.5.54,a.4.5.54 107686,107687 1ei6A 406 1.64e+01 c.76.1.4 90443 2g8lA 299 1.68e+01 1kk8B 139 1.69e+01 a.39.1.5 77430 1w3iA 293 1.75e+01 c.1.10.1 109152 2bkkA 264 1.75e+01 1odfA 290 1.75e+01 c.37.1.6 92782 1i3cA 149 1.75e+01 c.23.1.1 71112 1jq5A 370 1.81e+01 e.22.1.2 67084 1qu9A 128 1.81e+01 1qu9A d.79.1.1 39755 1wohA 305 1.90e+01 c.42.1.1 109446 1sc3A 178 1.91e+01 c.17.1.1 105416 1lssA 140 1.91e+01 c.2.1.9 74246 1yw3A 208 1.92e+01 1ywqA 200 1.94e+01 1p6xA 334 1.96e+01 c.37.1.1 94195 1x0pA 143 1.96e+01 1usyA 275 1.97e+01 1cvl 319 2.05e+01 1cvl c.69.1.18 34786 1qx2A 76 2.05e+01 a.39.1.1 104622 1zjkA 403 2.09e+01 1mvoA 136 2.09e+01 c.23.1.1 79513 1uhnA 189 2.09e+01 a.39.1.5 99399 1jysA 242 2.18e+01 c.56.2.1 77216 1oi7A 288 2.20e+01 c.2.1.8,c.23.4.1 87049,87050 2a3nA 355 2.20e+01 1pinA 163 2.23e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1sheA 103 2.26e+01 d.274.1.1 105551 1vhh 162 2.28e+01 1vhh d.65.1.2 39550 1f06A 320 2.30e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1nh8A 304 2.33e+01 c.94.1.1,d.58.5.3 80507,80508 1onrA 316 2.35e+01 1onrA c.1.10.1 29169 1luaA 287 2.38e+01 c.2.1.7,c.58.1.4 78216,78217 1i1wA 303 2.39e+01 c.1.8.3 76732 1bgvA 449 2.42e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 2fkiA 126 2.56e+01 1mho 88 2.57e+01 1b4cA a.39.1.2 17171 1h8eD 482 2.59e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1x6mA 196 2.63e+01 1u02A 239 2.64e+01 c.108.1.15 107538 1t6aA 126 2.66e+01 d.129.8.1 106555 1nox 205 2.72e+01 1nox d.90.1.1 40242 1vj0A 380 2.76e+01 b.35.1.2,c.2.1.1 100786,100787 1k9uA 78 2.78e+01 a.39.1.10 84348 1k0hA 117 2.79e+01 b.106.1.2 71975 1vggA 161 2.83e+01 1js3A 486 2.84e+01 c.67.1.6 67215 1v25A 541 2.85e+01 e.23.1.1 108275 1ogsA 497 2.86e+01 b.71.1.2,c.1.8.3 86997,86998 1dd9A 338 2.92e+01 1dd9A e.13.1.1 43254 1cjcA 460 2.93e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1sbyA 254 2.94e+01 2b18A 164 2.96e+01 1zdrA 164 2.96e+01 1m8jA 181 2.97e+01 c.26.1.3 84875 1q2lA 939 3.01e+01 1ztdA 133 3.03e+01 2c5uA 375 3.16e+01 1wdjA 187 3.16e+01 2bvfA 459 3.22e+01 1ej2A 181 3.24e+01 1f9aA c.26.1.3 59414 1vecA 206 3.25e+01 c.37.1.19 100575 2bwrA 401 3.26e+01 2be3A 226 3.27e+01 1txnA 328 3.29e+01 2g9iA 249 3.33e+01 1ixh 321 3.37e+01 1ixh c.94.1.1 35761 1wdcB 156 3.38e+01 1wdcB a.39.1.5 17302 1ly1A 181 3.41e+01 c.37.1.1 74334 1fxkB 109 3.47e+01 1fxkA a.2.5.1 15704 1hrhA 136 3.49e+01 1rthA c.55.3.1 33577 1r89A 437 3.54e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1me8A 503 3.54e+01 c.1.5.1 79028 1u6tA 121 3.61e+01 1q35A 320 3.61e+01 c.94.1.1 95661 1xccA 220 3.61e+01 2aieP 203 3.61e+01 1u20A 212 3.63e+01 1vioA 243 3.65e+01 d.265.1.3,d.66.1.5 100762,100763 1wy9A 147 3.65e+01 1wr8A 231 3.67e+01 1jx4A 352 3.67e+01 d.240.1.1,e.8.1.7 90378,90379 2gdqA 382 3.80e+01 1yfsA 465 3.80e+01 1ylqA 96 3.83e+01 1w9hA 427 3.87e+01 1kq3A 376 3.87e+01 e.22.1.2 68790 1gyxA 76 3.90e+01 d.80.1.1 76387 1dcfA 136 3.91e+01 1dcfA c.23.1.2 31124 1e42A 258 3.93e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1fus 106 3.97e+01 9rnt d.1.1.4 36050 2au3A 407 3.99e+01 1rkqA 282 4.05e+01 c.108.1.10 97621 1yt8A 539 4.06e+01 1neeA 138 4.07e+01 d.241.1.1,g.59.1.1 91841,91842 2cx5A 158 4.07e+01 1pyoA 167 4.11e+01 c.17.1.1 95370 1wmaA 276 4.12e+01 1orvA 728 4.14e+01 b.70.3.1,c.69.1.24 87354,87355 1sqgA 429 4.15e+01 a.79.1.3,c.66.1.38 105912,105913 1zr6A 503 4.18e+01 1aisA 182 4.18e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1jh6A 189 4.21e+01 d.61.1.1 66707 1ad1A 266 4.21e+01 1aj2 c.1.21.1 29668 1pvtA 238 4.26e+01 c.74.1.1 95189 1io0A 185 4.30e+01 c.10.1.1 76753 2g30A 258 4.36e+01 1lvfA 110 4.40e+01 a.47.2.1 74280 2ahqA 76 4.42e+01 1prxA 224 4.45e+01 1prxA c.47.1.10 33076 1vmbA 140 4.45e+01 2af4C 333 4.50e+01 1z2aA 168 4.50e+01 2a2cA 478 4.60e+01 1exrA 148 4.60e+01 1cll a.39.1.5 17299 1sr8A 298 4.64e+01 e.54.1.1 105959 1mo9A 523 4.66e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1o20A 427 4.70e+01 c.82.1.1 86556 1bvyF 191 4.75e+01 1bvyF c.23.5.1 31207 2bx6A 350 4.80e+01 1z5zA 271 4.83e+01 1vknA 351 4.85e+01 c.2.1.3,d.81.1.1 108676,108677 1ii5A 233 4.88e+01 c.94.1.1 62412 1ub3A 220 4.91e+01 c.1.10.1 88395 1qj4A 257 4.93e+01 1qj4A c.69.1.20 34796 1ksoA 101 4.97e+01 a.39.1.2 72926 1qg8A 255 4.99e+01 1qg8A c.68.1.1 34505 1wzuA 300 5.01e+01 1mgtA 174 5.06e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1j3mA 129 5.07e+01 d.129.7.1 103836 1dz3A 130 5.11e+01 1dz3A c.23.1.1 31105 1xzoA 174 5.12e+01 1el5A 389 5.15e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1c7gA 456 5.25e+01 c.67.1.2 90415 1xwyA 264 5.29e+01 1z6nA 167 5.31e+01 1pjcA 361 5.44e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1o7qA 289 5.58e+01 c.68.1.9 92626 1ii7A 333 5.68e+01 1ii7A d.159.1.4 62415 1qd9A 124 5.70e+01 1qu9A d.79.1.1 39758 1sd4A 126 5.73e+01 a.4.5.39 105428 1cs0A 1073 5.74e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 2cveA 191 5.75e+01 1xrsA 516 5.76e+01 2f1rA 171 5.84e+01 1y9uA 323 5.84e+01 1ex7A 186 5.88e+01 1gky c.37.1.1 59537 1zlqA 502 5.89e+01 1gky 187 5.90e+01 1gky c.37.1.1 31839 1wxxA 382 5.92e+01 1g57A 217 5.96e+01 1g57A d.115.1.2 60253 1j2gA 319 6.05e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1nrzA 164 6.07e+01 c.38.1.1 86131 1k94A 165 6.09e+01 a.39.1.8 68333 1xc1A 309 6.15e+01 c.94.1.1 109543 1d5tA 433 6.15e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1ys1X 320 6.22e+01 1g8aA 227 6.23e+01 c.66.1.3 90506 1zzmA 259 6.25e+01 2a5yB 549 6.27e+01 1pdo 135 6.28e+01 1pdo c.54.1.1 33376 1pgvA 197 6.29e+01 c.10.1.1 88073 1vrmA 325 6.31e+01 2b9wA 424 6.37e+01 1nvmB 312 6.38e+01 c.2.1.3,d.81.1.1 86251,86252 1uu1A 335 6.39e+01 c.67.1.1 99993 2f1fA 164 6.45e+01 1eiwA 111 6.47e+01 1eiwA c.23.3.1 31130 1zvdA 380 6.48e+01 2fokA 579 6.49e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1aa6 715 6.50e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2cvdA 198 6.51e+01 2esrA 177 6.54e+01 1iyhA 198 6.56e+01 a.45.1.1,c.47.1.5 83790,83791 1i19A 561 6.57e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2arhA 203 6.59e+01 1wlsA 328 6.62e+01 1oacA 727 6.69e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1szoA 257 6.76e+01 c.14.1.3 106164 1ylhA 560 6.83e+01 2a19A 175 6.87e+01 1yovA 537 6.91e+01 1mdl 359 6.93e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1jmsA 381 6.99e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1ec7A 446 7.08e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1o57A 291 7.09e+01 a.4.5.40,c.61.1.1 92483,92484 3tgl 269 7.10e+01 3tgl c.69.1.17 34733 1gnuA 117 7.12e+01 d.15.1.3 65403 1s7kA 182 7.14e+01 1w0mA 226 7.15e+01 c.1.1.1 109027 1hjrA 158 7.17e+01 1hjrA c.55.3.6 33727 2d37A 176 7.20e+01 8abp 306 7.26e+01 8abp c.93.1.1 35647 1w6vA 141 7.30e+01 1c7qA 445 7.32e+01 2pgi c.80.1.2 35307 1cliA 345 7.33e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1e6yC 247 7.36e+01 1mroC d.58.31.1 39441 1pea 385 7.38e+01 1pea c.93.1.1 35662 1h5rA 293 7.39e+01 c.68.1.6 65623 1x9zA 188 7.43e+01 1eybA 471 7.54e+01 1ey2A b.82.1.4 28115 2bjnA 160 7.69e+01 1vyiA 112 7.70e+01 1zetA 388 7.71e+01 1zsyA 357 7.71e+01 1hdoA 206 7.72e+01 1he2A c.2.1.2 60965 1zq6A 359 7.88e+01 2av5A 120 7.89e+01 1gs5A 258 7.90e+01 c.73.1.2 70395 1l0wA 580 7.90e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1z9tA 255 7.92e+01 1kqfB 294 7.95e+01 d.58.1.5,f.23.22.1 75900,75901 1qhfA 240 8.01e+01 1qhfA c.60.1.1 33960 1zx8A 136 8.01e+01 1m45A 148 8.01e+01 a.39.1.5 78598 1cqmA 101 8.03e+01 1ris d.58.14.1 39321 1kvkA 395 8.06e+01 d.14.1.5,d.58.26.3 73060,73061 1ig5A 75 8.06e+01 4icb a.39.1.1 62363 1hr6A 475 8.07e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1k8uA 90 8.10e+01 a.39.1.2 72181 2f8mA 244 8.14e+01 1tbxA 99 8.14e+01 a.4.5.48 106748 1a53 247 8.16e+01 1a53 c.1.2.4 28564 1ga8A 311 8.18e+01 1ga8A c.68.1.4 34516 1cznA 169 8.19e+01 1rcf c.23.5.1 31181 1uxtA 501 8.19e+01 c.82.1.1 108125 1ry6A 360 8.25e+01 c.37.1.9 98090 1m6sA 347 8.29e+01 c.67.1.1 78701 2fb1A 226 8.48e+01 1eayC 74 8.58e+01 1eayC d.58.24.1 39386 1vb3A 428 8.61e+01 2cw6A 298 8.70e+01 2bfwA 200 8.71e+01 1ccwA 137 8.73e+01 1be1 c.23.6.1 31238 1l3kA 196 8.78e+01 d.58.7.1,d.58.7.1 73539,73540 1bif 469 8.79e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1wvfA 520 8.92e+01 2f5gA 133 8.94e+01 1y1pA 342 8.95e+01 1sr9A 644 8.95e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962