# List of top-scoring protein chains for t04-100-30-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.soe.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 2bj7A 138 1.69e-04 a.43.1.3,d.58.18.4 128608,128609 2cpgA 45 4.55e-03 2cpgA a.43.1.3 17455 2gpeA 52 6.20e-03 1p94A 76 1.21e-02 a.43.1.3 94380 2fu2A 102 1.90e-01 1uz3A 102 2.33e-01 1utuA 108 4.39e-01 2an7A 83 5.68e-01 2bsqE 77 6.19e-01 a.43.1.8 129102 2aa1A 144 9.32e-01 a.1.1.2 126463 1x93A 55 9.69e-01 1tc3C 51 1.03e+00 1tc3C a.4.1.2 16025 1p4xA 250 1.10e+00 a.4.5.28,a.4.5.28 87784,87785 2q2kA 70 1.44e+00 1xqwA 293 1.44e+00 2gtrA 261 2.03e+00 1irqA 71 2.04e+00 a.43.1.4 66297 1mtzA 293 2.08e+00 c.69.1.7 79467 2ba3A 51 2.08e+00 2qypA 91 2.10e+00 2ijeS 240 2.39e+00 2h8fA 143 2.43e+00 a.1.1.2 136239 2fwrA 472 2.59e+00 c.37.1.19,c.37.1.19 134253,134254 1qvbA 481 2.74e+00 1qvbA c.1.8.4 28983 1a5zA 319 2.78e+00 c.2.1.5,d.162.1.1 30181,42148 1q2zA 120 3.37e+00 a.118.19.1 95656 1ek8A 185 3.52e+00 1ek8A d.67.3.1 59444 1h3fA 432 3.77e+00 c.26.1.1,d.66.1.4 76631,76632 1sq5A 308 3.84e+00 c.37.1.6 105882 3bs5B 80 4.08e+00 1id1A 153 4.12e+00 1id1A c.2.1.9 62286 1gt1A 159 4.35e+00 b.60.1.1 90515 3ccyA 203 4.44e+00 1jadA 251 4.51e+00 h.4.10.1 66461 2hpkA 208 4.60e+00 2qhoB 53 4.84e+00 1obpA 159 5.12e+00 1obpA b.60.1.1 27092 2q3mA 326 5.29e+00 c.37.1.5 139795 1mbe 53 5.41e+00 1mbe 2k29A 53 5.52e+00 1onqA 283 5.61e+00 b.1.1.2,d.19.1.1 93365,93366 2a4aA 281 5.80e+00 c.1.10.1 126150 2dobA 83 6.20e+00 2fikA 287 6.42e+00 b.1.1.2,d.19.1.1 133524,133525 1uwvA 433 6.74e+00 b.40.4.12,c.66.1.40 100128,100129 2in3A 216 6.94e+00 1d2zA 108 7.03e+00 1d2zA a.77.1.2 18437 1cd31 152 7.22e+00 1cd31 1iseA 185 7.24e+00 d.67.3.1 90691 2qwwA 154 7.34e+00 1t8sA 484 7.48e+00 c.56.2.1 106679 2pmrA 87 7.62e+00 1exqA 154 7.69e+00 1b9dA c.55.3.2 33646 2e1dA 331 7.73e+00 2bl0A 63 7.78e+00 1guuA 52 7.79e+00 a.4.1.3 83332 2eboA 74 8.09e+00 2eboA h.3.2.1 45754 1fadA 99 8.14e+00 1fadA a.77.1.2 18428 1qmqA 414 8.23e+00 1phd a.104.1.1 18907 2akrA 285 8.36e+00 b.1.1.2,d.19.1.1 126931,126932 1v4xA 144 8.61e+00 a.1.1.2 108363 1vpvA 300 8.80e+00 c.119.1.1 113975 2nteA 210 8.82e+00 1o13A 136 8.90e+00 c.55.5.1 80762 2hd5A 359 8.95e+00 1ynpA 317 9.31e+00 2fsaA 174 1.02e+01 1ovaA 386 1.02e+01 1ovaA e.1.1.1 42619 2p61A 162 1.06e+01 2qgaB 465 1.09e+01 1vjqA 79 1.10e+01 k.43.1.1 100830 1b74A 254 1.10e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 2j49A 148 1.15e+01 2h1tA 188 1.15e+01 1srrA 124 1.19e+01 1dz3A c.23.1.1 31110 1fioA 196 1.20e+01 1fioA a.47.2.1 17773 2d7dB 40 1.20e+01 1gvdA 52 1.22e+01 a.4.1.3 83338 1fipA 98 1.23e+01 1fipA a.4.1.12 18980 1u8tA 129 1.27e+01 c.23.1.1 113192 1d0qA 103 1.27e+01 1d0qA g.41.3.2 45208 1miuA 738 1.28e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 2couA 109 1.31e+01 1n7sC 79 1.36e+01 h.1.15.1 80273 1go3F 107 1.41e+01 a.60.8.2 65407 1qtoA 122 1.43e+01 1bylA d.32.1.2 38494 2ex5A 207 1.50e+01 2az0A 73 1.54e+01 a.30.8.1 127578 1v9nA 360 1.55e+01 1m12A 84 1.59e+01 a.64.1.1 84745 2qyaA 124 1.61e+01 1tx9A 151 1.62e+01 a.84.1.1 119383 1vlpA 441 1.65e+01 d.41.2.2,c.1.17.2 108840,108841 2ou3A 161 1.66e+01 2ov9A 216 1.69e+01 2ptsA 462 1.70e+01 2es4D 332 1.70e+01 2nvaA 372 1.73e+01 2hzqA 174 1.74e+01 2i6xA 211 1.94e+01 1t15A 214 1.97e+01 c.15.1.3,c.15.1.3 99067,99068 1wdcB 156 1.98e+01 1wdcB a.39.1.5 17302 1wleA 501 2.05e+01 1sfcC 83 2.06e+01 1sfcC h.1.15.1 45645 2gyqA 175 2.08e+01 a.25.1.4 135863 1xmaA 145 2.16e+01 a.4.5.61 115477 1dvoA 152 2.20e+01 1dvoA a.136.1.1 19623 1uhgA 385 2.27e+01 e.1.1.1 88491 1v64A 108 2.27e+01 a.21.1.1 108392 1g291 372 2.32e+01 1g291 2zhgA 154 2.35e+01 1mgpA 313 2.37e+01 c.119.1.1 79098 1uptB 60 2.44e+01 a.193.1.1 99768 1yoeA 322 2.46e+01 1is1A 185 2.47e+01 d.67.3.1 83704 1rw2A 152 2.47e+01 a.118.19.1 97961 1g5hA 454 2.52e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2yx6A 121 2.52e+01 2d9iA 96 2.56e+01 2hejA 323 2.58e+01 1jnyA 435 2.58e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1lqaA 346 2.60e+01 c.1.7.1 84674 3cjxA 165 2.61e+01 2g0qA 173 2.63e+01 3il8A 72 2.64e+01 d.9.1.1 37356 1vkeA 133 2.66e+01 a.152.1.2 108650 2ao0A 324 2.67e+01 1ygtA 111 2.75e+01 2ozbB 260 2.75e+01 2ilrA 264 2.75e+01 1fpoA 171 2.76e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1owfB 94 2.78e+01 a.55.1.1 87488 2ca9A 148 2.82e+01 1xrxA 50 2.83e+01 a.43.1.7 122264 1bl3A 160 2.86e+01 1b9dA c.55.3.2 33655 2hsbA 126 2.89e+01 1q0vA 81 2.95e+01 j.105.1.1 95514 1dz4A 414 2.97e+01 1phd a.104.1.1 18903 2ri7A 174 2.97e+01 1uedA 406 2.98e+01 a.104.1.1 99256 1zd1A 284 3.00e+01 2hsnA 160 3.03e+01 1mkeA 152 3.04e+01 b.55.1.4 79231 1qo7A 394 3.18e+01 1qo7A c.69.1.11 34697 2rn2 155 3.21e+01 2rn2 1ppjE 196 3.27e+01 b.33.1.1,f.23.12.1 104260,104261 1krhA 338 3.28e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2zc2A 78 3.29e+01 1z0xA 220 3.33e+01 a.4.1.9,a.121.1.1 124334,124335 2pfxA 191 3.33e+01 1tiqA 180 3.37e+01 d.108.1.1 107010 1m1eB 81 3.38e+01 a.161.1.1 78400 1uklC 61 3.42e+01 a.38.1.1 99495 2jt1A 77 3.44e+01 3bpjA 80 3.47e+01 1ykiA 217 3.52e+01 d.90.1.1 123520 1xhdA 173 3.53e+01 b.81.1.5 115295 1oaiA 59 3.53e+01 a.5.2.3 81255 1ll7A 392 3.57e+01 c.1.8.5,d.26.3.1 78085,78086 2qsfX 171 3.62e+01 2uykA 129 3.63e+01 1yrcA 414 3.63e+01 a.104.1.1 123917 1r3eA 309 3.68e+01 b.122.1.1,d.265.1.2 96907,96908 2ptrA 462 3.71e+01 1x3zB 72 3.73e+01 a.189.1.1 121674 1eexG 173 3.75e+01 1dioG a.23.2.1 16490 2ysrA 105 3.77e+01 1kfwA 435 3.81e+01 c.1.8.5,d.26.3.1 77376,77377 2q04A 211 3.81e+01 1nuuA 252 3.88e+01 c.26.1.3 86209 2rfrA 155 3.95e+01 1tazA 365 3.99e+01 a.211.1.2 106734 3proC 166 4.00e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2i9fA 69 4.03e+01 1k1vA 41 4.09e+01 a.37.1.1 71999 1xpxA 163 4.13e+01 a.4.1.1 122230 1gowA 489 4.16e+01 1qvbA c.1.8.4 28981 1lghB 45 4.16e+01 1lghB f.3.1.1 43734 7ahlA 293 4.16e+01 7ahlA f.6.1.1 43812 1w8iA 156 4.17e+01 c.120.1.1 114368 2o8iA 165 4.21e+01 2o5uA 148 4.27e+01 1d2kA 392 4.28e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 1w6kA 732 4.28e+01 a.102.4.2,a.102.4.2 114271,114272 2hvgA 482 4.31e+01 2pg0A 385 4.32e+01 2jmzA 186 4.32e+01 3buvA 326 4.35e+01 1xkyA 301 4.36e+01 c.1.10.1 122094 1j96A 323 4.39e+01 c.1.7.1 71616 2e57A 637 4.40e+01 1l9xA 315 4.43e+01 c.23.16.1 73762 2icwG 213 4.44e+01 a.202.1.1 137251 1ynfA 458 4.45e+01 d.126.1.7 123723 2g5fA 450 4.48e+01 d.161.1.1 134654 2yutA 207 4.56e+01 2oxlA 64 4.57e+01 3b40A 417 4.60e+01 1i06A 180 4.67e+01 1mup b.60.1.1 27131 3bjuA 521 4.68e+01 2hp7A 183 4.68e+01 1a7cA 379 4.70e+01 1sek e.1.1.1 42660 1rjdA 334 4.70e+01 c.66.1.37 97558 2pqrA 129 4.75e+01 1jv4A 162 4.75e+01 b.60.1.1 67343 1dc1A 323 4.82e+01 1dc1A c.52.1.11 33321 2e18A 257 4.86e+01 3chy 128 4.89e+01 3chy 3bomB 147 4.92e+01 2nogA 173 4.92e+01 2gauA 232 5.01e+01 a.4.5.4,b.82.3.2 134894,134895 3brvA 48 5.05e+01 2fxaA 207 5.06e+01 a.4.5.28 134304 2di4A 238 5.06e+01 a.269.1.1 131522 1i4dA 224 5.11e+01 a.238.1.2 61682 1din 236 5.14e+01 1din 3b5mA 205 5.24e+01 1v74A 107 5.24e+01 d.243.1.1 100442 1floA 422 5.26e+01 1floA a.60.9.1,d.163.1.1 18106,42166 2f7tA 227 5.27e+01 1f0jA 377 5.28e+01 1f0jA a.211.1.2 19346 1r5iD 216 5.33e+01 a.202.1.1 97091 1hm6A 346 5.33e+01 1avc a.65.1.1 18147 2oerA 214 5.39e+01 2qniA 219 5.39e+01 1wh5A 80 5.47e+01 a.4.1.1 114633 1x3kA 152 5.47e+01 2azjA 289 5.48e+01 2d4cA 256 5.52e+01 a.238.1.1 131246 1itg 166 5.53e+01 1b9dA 1ei7A 158 5.56e+01 1rmvA a.24.5.1 16584 1syyA 346 5.56e+01 a.25.1.2 106126 1omwA 689 5.56e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 2e6xA 69 5.58e+01 2efkA 301 5.61e+01 1zx4A 192 5.65e+01 1fm4A 159 5.66e+01 1bv1 d.129.3.1 76186 1hw6A 278 5.67e+01 1frb c.1.7.1 61296 1iurA 88 5.68e+01 a.2.3.1 90704 1vj7A 393 5.68e+01 a.211.1.1,d.218.1.8 100801,100802 1p16A 395 5.76e+01 b.40.4.6,d.142.2.3 87661,87662 1i1dA 161 5.77e+01 1i21A d.108.1.1 61526 2gboA 104 5.80e+01 a.23.6.1 134923 1jjiA 311 5.81e+01 c.69.1.2 66766 2dbhA 102 5.88e+01 1zh2A 121 5.91e+01 c.23.1.1 125069 1zndA 174 6.02e+01 b.60.1.1 125380 2basA 431 6.13e+01 c.1.33.1,d.110.6.2 128244,128245 2inpC 328 6.16e+01 1s1pA 331 6.19e+01 c.1.7.1 98350 2oktA 342 6.20e+01 1ofcX 304 6.23e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2hlvA 160 6.26e+01 2h4tA 626 6.29e+01 1cmbA 104 6.31e+01 1cmbA a.43.1.5 17460 2c5rA 67 6.31e+01 a.251.1.1 129944 1uxjA 309 6.33e+01 c.2.1.5,d.162.1.1 108112,108113 2aj6A 159 6.36e+01 d.108.1.1 126841 2ehpA 126 6.37e+01 1z2cB 383 6.37e+01 a.118.1.23 124377 2epiA 100 6.39e+01 2hhgA 139 6.39e+01 1yvkA 163 6.41e+01 d.108.1.1 124101 1wmiB 67 6.47e+01 a.137.13.1 121046 2pa4A 323 6.47e+01 2v6xA 85 6.58e+01 1lq9A 112 6.61e+01 d.58.4.3 78129 2bgsA 344 6.62e+01 2ph3A 245 6.63e+01 1qy1A 174 6.65e+01 b.60.1.1 96568 1q2wA 308 6.69e+01 b.47.1.4 88355 1fjrA 195 6.69e+01 1fjrA b.102.1.1 59855 1b9lA 120 6.73e+01 1b9lA d.96.1.3 40665 1zd0A 150 6.73e+01 d.329.1.1 124927 2av9A 147 6.74e+01 d.38.1.1 127365 1m70A 190 6.75e+01 a.3.1.4,a.3.1.4 91200,91201 2vd6A 503 6.77e+01 1pcfA 66 6.80e+01 1pcfA d.18.1.1 38142 1tr8A 102 6.86e+01 1etxA 98 6.88e+01 1fipA a.4.1.12 18978 2ia2A 265 6.89e+01 2pth 193 6.89e+01 2pth 2q4pA 170 6.93e+01 1y8qA 346 6.96e+01 2qo4A 126 6.97e+01 2b5tI 432 6.99e+01 e.1.1.1 127905 3cz6A 168 7.08e+01 2f9zC 159 7.08e+01 2cx6A 90 7.09e+01 c.9.1.1 130981 2p1aA 154 7.11e+01 2ehsA 77 7.14e+01 1wfdA 93 7.14e+01 a.7.14.1 114578 1q5nA 454 7.16e+01 a.127.1.1 95901 2yyyA 343 7.17e+01 1uwsA 489 7.17e+01 c.1.8.4 108073 2vapA 364 7.19e+01 1sh8A 154 7.33e+01 d.38.1.5 105549 2qikA 285 7.34e+01 2o8gI 225 7.37e+01 1cg5B 141 7.38e+01 1cg5B a.1.1.2 15585 1ic8A 194 7.39e+01 a.4.1.1,a.35.1.1 76740,76741 2sicI 107 7.40e+01 3ssi d.84.1.1 40031 3bfmA 235 7.42e+01 2j91A 503 7.45e+01 1scjB 71 7.52e+01 1scjB d.58.3.2 39069 2hwyA 164 7.53e+01 1o5iA 249 7.55e+01 c.2.1.2 92499 2pthA 193 7.60e+01 c.56.3.1 33793 1ta8A 332 7.60e+01 d.142.2.2 112375 1ggzA 148 7.68e+01 a.39.1.5 70176 3tmkA 216 7.71e+01 3tmkA c.37.1.1 31920 1ur5A 309 7.73e+01 c.2.1.5,d.162.1.1 99807,99808 2bo1A 101 7.75e+01 1e4eA 343 7.76e+01 1iow c.30.1.2,d.142.1.1 59221,59222 2j69A 695 7.76e+01 2co3A 137 7.76e+01 b.2.3.2 130665 2hm2Q 89 7.76e+01 1x46A 150 7.81e+01 1auiB 169 7.81e+01 1auiB a.39.1.5 17325 2v1oA 151 7.87e+01 1lj9A 144 7.96e+01 a.4.5.28 78035 1ypfA 336 7.97e+01