# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2qe9A 178 4.30e-15 2f22A 144 6.06e-11 a.213.1.2 132795 2qnlA 162 1.16e-10 2ou6A 190 1.56e-09 2hkvA 149 2.88e-09 2p1aA 154 2.12e-08 1rxqA 178 2.32e-06 a.213.1.1 105118 2yqyA 169 5.81e-04 3c4hA 357 1.74e-01 2pa9A 357 2.62e-01 1js3A 486 6.39e-01 c.67.1.6 67215 1wu3I 161 1.85e+00 a.26.1.3 114890 1odoA 408 3.22e+00 a.104.1.1 92783 2p57A 144 3.69e+00 1p68A 102 3.77e+00 k.8.1.1 94158 1q16C 225 3.99e+00 f.21.3.1 95549 1y5iC 225 4.75e+00 1fcqA 350 5.59e+00 c.1.8.9 65006 2dldA 337 5.70e+00 1dxy c.2.1.4,c.23.12.1 30099,31359 2q4pA 170 5.81e+00 2nogA 173 6.43e+00 2bw3A 534 6.48e+00 a.270.1.1,c.55.3.12 129317,129318 2nsfA 261 7.21e+00 1rovA 857 7.67e+00 a.119.1.1,b.12.1.1 97674,97675 2v75A 104 8.76e+00 2oieA 111 8.90e+00 a.204.1.2 139092 2f48A 555 8.91e+00 c.89.1.1 132915 1pea 385 9.06e+00 1pea 1peaA 385 9.06e+00 c.93.1.1 35662 2v7kA 361 1.04e+01 2ifuA 307 1.07e+01 2fafA 608 1.08e+01 2de0X 526 1.12e+01 2o8pA 227 1.15e+01 2yv9A 291 1.15e+01 2arhA 203 1.23e+01 d.108.1.9 127197 2nuwA 288 1.28e+01 2obhA 143 1.43e+01 1qb2A 109 1.50e+01 1qb2A a.36.1.1 17125 2dr1A 386 1.50e+01 1bob 320 1.59e+01 1bob 1bobA 320 1.59e+01 d.108.1.1 40816 1crxA 322 1.60e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 2gpcA 194 1.85e+01 2ga1A 106 1.86e+01 a.4.1.16 134850 1a41 234 1.88e+01 1a41 1a41A 234 1.88e+01 d.163.1.2 42174 1k1fA 72 1.93e+01 a.147.1.1 68007 2ewfA 610 1.96e+01 1btmA 252 2.00e+01 1amk c.1.1.1 28513 2q1zA 184 2.00e+01 1lrv 244 2.01e+01 1lrv 1lrvA 244 2.01e+01 a.118.1.5 19146 1hy5A 136 2.05e+01 a.24.11.1 65955 1xo0A 324 2.09e+01 a.60.9.1,d.163.1.1 115674,115675 2im8A 131 2.10e+01 a.24.26.1 137506 2bh4X 134 2.13e+01 1v54A 514 2.15e+01 f.24.1.1 100321 2j07A 420 2.18e+01 a.99.1.1,c.28.1.1 137891,137892 1gpmA 525 2.19e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2etsA 128 2.21e+01 a.24.26.1 132371 2b2yA 187 2.23e+01 b.34.13.2,b.34.13.2 127754,127755 1bsmA 201 2.26e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 1avmA 201 2.27e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 2o7rA 338 2.32e+01 2qf9A 179 2.36e+01 1bhdA 118 2.37e+01 1bkrA a.40.1.1 17398 2a8yA 270 2.40e+01 2oa8A 233 2.47e+01 1t2dA 322 2.49e+01 c.2.1.5,d.162.1.1 99084,99085 1wh5A 80 2.51e+01 a.4.1.1 114633 1f44A 324 2.54e+01 a.60.9.1,d.163.1.1 64982,64983 1j4aA 333 2.69e+01 c.2.1.4,c.23.12.1 71502,71503 2iakA 224 2.71e+01 2occA 514 2.77e+01 2occA f.24.1.1 43518 2r9iA 141 2.79e+01 1q7gA 359 2.85e+01 c.2.1.3,d.81.1.2 96038,96039 2v7pA 310 2.89e+01 2vsgA 358 3.04e+01 2vsgA h.4.1.1 45780 1mqsA 671 3.06e+01 e.25.1.1 79414 1v64A 108 3.07e+01 a.21.1.1 108392 1ezfA 340 3.08e+01 1ezfA a.128.1.2 19440 2pqmA 343 3.10e+01 2a6hC 1119 3.11e+01 e.29.1.1 126264 1qagA 226 3.12e+01 1qagA a.40.1.1,a.40.1.1 17400,17401 1ct5A 256 3.14e+01 1ct5A c.1.6.2 28663 2pa8L 92 3.14e+01 2hp7A 183 3.17e+01 1w5cF 44 3.17e+01 i.5.1.1 114220 1rp3A 239 3.21e+01 a.4.13.1,a.4.13.2,a.177.1.1 97678,97679,97680 2hvmA 273 3.24e+01 c.1.8.5 28985 1nw3A 416 3.32e+01 c.66.1.31 86288 1kbuA 349 3.45e+01 a.60.9.1,d.163.1.1 72284,72285 2uuiA 156 3.45e+01 2h09A 155 3.52e+01 2bcjB 340 3.55e+01 b.69.4.1 128289 2nybA 192 3.60e+01 a.2.11.1,d.44.1.1 138804,138805 5tmpA 213 3.62e+01 5tmpA c.37.1.1 31931 3bhcA 249 3.62e+01 3crxA 343 3.64e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 2vo1A 295 3.64e+01 1miuA 738 3.65e+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 3bt5A 177 3.66e+01 4crxA 322 3.68e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1ihgA 370 3.81e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2axtF 45 3.83e+01 1gwiA 411 3.85e+01 a.104.1.1 76364 1vjxA 157 3.86e+01 a.25.1.1 100837 2r9zA 463 3.92e+01 1gotB 340 3.94e+01 1tbgA b.69.4.1 27648 2coiA 386 3.95e+01 2axtB 510 3.96e+01 1vrbA 342 3.97e+01 b.82.2.11 120450 1yeyA 444 3.97e+01 c.1.11.2,d.54.1.1 116664,116665 2o57A 297 3.98e+01 1ofcX 304 4.00e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 3c5iA 369 4.09e+01 1qzzA 374 4.20e+01 a.4.5.29,c.66.1.12 96719,96720 1kczA 413 4.23e+01 c.1.11.2,d.54.1.1 68451,68452 2hxtA 441 4.24e+01 2qklB 95 4.27e+01 1xxsA 122 4.28e+01 2bwvA 440 4.33e+01 c.55.2.1,d.127.1.1 129387,129388 1wl9A 440 4.36e+01 c.55.2.1,d.127.1.1 120998,120999 2v3zA 440 4.36e+01 4tmkA 213 4.42e+01 5tmpA c.37.1.1 31930 1kl7A 514 4.42e+01 c.79.1.1 72678 2hzlA 365 4.48e+01 1s0pA 176 4.50e+01 a.192.1.1 98300 2np5A 203 4.52e+01 a.4.1.9,a.121.1.1 138424,138425 1kqzA 273 4.60e+01 c.1.8.5 68844 2qgaB 465 4.67e+01 1ykuA 136 4.70e+01 2hvgA 482 4.74e+01 1i8oA 114 4.77e+01 1ycc a.3.1.1 61979 1l8cA 95 4.78e+01 g.53.1.1 73685 1yhuB 144 4.90e+01 2clyB 160 4.90e+01 2gsmA 566 4.90e+01 f.24.1.1 135589 2h27A 73 5.00e+01 a.4.13.2 135993 2fm9A 215 5.00e+01 a.257.1.1 133770 1ywwA 85 5.00e+01 2hneA 436 5.04e+01 2p64A 52 5.05e+01 2e50A 225 5.05e+01 1zk7A 467 5.08e+01 2jpjA 39 5.08e+01 3b77A 193 5.24e+01 3bczA 293 5.25e+01 1ew6A 137 5.34e+01 1ewaA a.1.1.2 15637 1ewaA 137 5.34e+01 1ewaA a.1.1.2 15639 2fgoA 82 5.37e+01 1tbgA 340 5.37e+01 1tbgA b.69.4.1 27649 2rfrA 155 5.40e+01 1a0rB 340 5.41e+01 1tbgA b.69.4.1 27658 1rxwA 336 5.41e+01 a.60.7.1,c.120.1.2 98059,98060 1wa5C 960 5.42e+01 a.118.1.1 114433 1yk3A 210 5.43e+01 d.108.1.1 123493 2o9pA 454 5.45e+01 2va8A 715 5.56e+01 1b5eA 246 5.60e+01 1b5eA d.117.1.1 41056 1f5qB 252 5.61e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 1hy3A 294 5.63e+01 c.37.1.5 71090 1u5rA 348 5.66e+01 d.144.1.7 113050 1g3mA 294 5.67e+01 c.37.1.5 83268 1tr1A 447 5.67e+01 1e70M c.1.8.4 28957 1r6uA 437 5.69e+01 c.26.1.1 97163 2cfmA 561 5.70e+01 1ig5A 75 5.76e+01 4icb a.39.1.1 62363 2b0tA 738 5.82e+01 2d2mD 145 5.87e+01 2fiyA 309 5.92e+01 e.59.1.1 133540 1qgxA 357 5.94e+01 1qgxA e.7.1.1 42973 1ka1A 357 5.94e+01 e.7.1.1 68369 1ituA 369 5.94e+01 c.1.9.7 71423 1w2qA 127 5.95e+01 2pe4A 424 5.95e+01 1ifa 158 5.97e+01 1ifa 1qkrA 188 5.98e+01 1qkrA a.24.9.1 16628 1l1qA 186 6.03e+01 c.61.1.1 77653 2oewA 380 6.05e+01 2g7sA 194 6.08e+01 a.4.1.9,a.121.1.1 134737,134738 1wy2A 351 6.15e+01 2cblA 305 6.18e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1lki 180 6.20e+01 1lki 1lkiA 180 6.20e+01 a.26.1.1 16829 1b25A 619 6.21e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1cb8A 678 6.22e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2np9A 440 6.29e+01 2ig3A 127 6.33e+01 2qibA 231 6.35e+01 3bb9A 148 6.37e+01 2hm2Q 89 6.48e+01 1keyA 235 6.53e+01 a.118.16.1 72389 1oaoA 674 6.54e+01 e.26.1.2 86744 1fr2B 134 6.56e+01 d.4.1.1 83257 1g1eB 89 6.58e+01 1g1eB a.59.1.1 17931 1bg1A 722 6.62e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1mngA 203 6.65e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2oqyA 391 6.65e+01 1giqA 413 6.70e+01 d.166.1.1,d.166.1.1 76224,76225 1ebfA 358 6.87e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1j9iA 68 6.92e+01 a.6.1.5 71619 2z2uA 311 6.93e+01 1mr8A 93 6.94e+01 1b4cA a.39.1.2 17186 2dskA 311 7.08e+01 2qn0A 430 7.15e+01 2vhfA 374 7.19e+01 1iscA 192 7.21e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1flp 142 7.23e+01 1flp 2gllA 171 7.32e+01 1dofA 403 7.33e+01 1c3cA a.127.1.1 19429 1y9iA 178 7.38e+01 a.195.1.1 116586 3bqoA 211 7.42e+01 2ethA 154 7.49e+01 a.4.5.28 132358 2ikbA 167 7.50e+01 2hujA 140 7.54e+01 a.24.26.1 136777 3ck6A 252 7.59e+01 1r5lA 262 7.59e+01 a.5.3.1,c.13.1.1 97099,97100 2of3A 266 7.62e+01 2zc8A 369 7.63e+01 2v6vA 156 7.80e+01 1wt4A 73 7.82e+01 2v1tA 73 7.82e+01