# List of top-scoring protein chains for t2k.w0.5 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 1mu5A 471 5.03e-04 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 2hkjA 469 5.03e-04 a.156.1.3 136553 d.14.1.3 136554 d.122.1.2 136555 1mx0A 472 5.04e-04 a.156.1.3 79618 d.14.1.3 79619 d.122.1.2 79620 2zbkB 530 7.24e-04 1r2zA 274 2.17e-02 a.156.1.2 96892 b.113.1.1 96893 g.39.1.8 96894 1l1zA 274 2.19e-02 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 2f5qA 274 2.80e-02 a.156.1.2 133004 b.113.1.1 133005 g.39.1.8 133006 2f5nA 274 2.82e-02 2q2eB 621 2.24e-01 1ee8A 266 2.31e-01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 2i7fA 108 3.99e-01 2vqeM 126 5.72e-01 1fjgM 126 5.72e-01 1fjfM a.156.1.1 16293 1i94M 125 5.76e-01 1fjfM a.156.1.1 62004 2og1A 286 6.41e-01 2pujA 286 6.43e-01 2rhwA 283 6.51e-01 2puhA 286 6.56e-01 1tdzA 272 7.92e-01 a.156.1.2 106787 b.113.1.1 106788 g.39.1.8 106789 1pjiA 271 7.95e-01 a.156.1.2 104161 b.113.1.1 104162 g.39.1.8 104163 1pjjA 271 7.96e-01 a.156.1.2 104164 b.113.1.1 104165 g.39.1.8 104166 1s1hM 132 1.92e+00 i.1.1.1 105165 2au5A 139 2.27e+00 a.244.1.1 127322 2gy9M 115 2.56e+00 1vs5M 118 2.69e+00 2qalM 117 2.71e+00 1a4eA 488 3.59e+00 1cf9A e.5.1.1 42806 2fdcA 658 3.79e+00 c.37.1.19 133302 c.37.1.19 133303 1t5lA 658 3.79e+00 c.37.1.19 106455 c.37.1.19 106456 1d9xA 658 4.05e+00 1d2mA c.37.1.19 32419 c.37.1.19 32420 1h7kA 483 4.22e+00 e.5.1.1 90624 1e93A 484 4.53e+00 e.5.1.1 64802 1qwlA 505 4.56e+00 e.5.1.1 96483 1m85A 484 5.22e+00 e.5.1.1 74578 1cbgA 490 5.26e+00 c.1.8.4 28933 1d9zA 657 5.42e+00 1d2mA c.37.1.19 32421 c.37.1.19 32422 1h6nA 484 5.54e+00 e.5.1.1 90623 4blcA 506 6.03e+00 1cf9A e.5.1.1 42775 2oclA 254 6.58e+00 2ocgA 254 6.70e+00 2ockA 254 6.75e+00 1c5dB 215 6.95e+00 1igtB b.1.1.1 20415 b.1.1.2 21387 2h5eA 529 7.31e+00 1zbuA 349 7.55e+00 2esbA 188 7.86e+00 1yb2A 275 7.96e+00 c.66.1.13 122868 1q3cA 262 8.81e+00 a.156.1.2 104521 b.113.1.1 104522 g.39.1.8 104523 1k3xA 262 8.82e+00 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 2opfA 262 8.82e+00 2oq4A 262 8.83e+00 1hovA 163 9.11e+00 d.92.1.11 65897 1k82A 268 9.68e+00 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 2bokA 241 1.08e+01 b.47.1.2 128916 1nd7A 374 1.10e+01 d.148.1.1 91817 1faxA 254 1.13e+01 5ptp b.47.1.2 26345 1p9bA 442 1.13e+01 c.37.1.10 94385 1hcgA 241 1.14e+01 5ptp b.47.1.2 26341 2uwpA 254 1.16e+01 b.47.1.2 140000 1c5mD 255 1.17e+01 5ptp b.47.1.2 26338 1g2lA 235 1.18e+01 b.47.1.2 65112 2pr3A 234 1.18e+01 2p3uB 233 1.19e+01 1cg3A 431 1.22e+01 1adeA c.37.1.10 32219 2gd4B 241 1.27e+01 2bq7B 249 1.29e+01 b.47.1.2 128964 1e0cA 271 1.30e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 6ccpA 296 1.30e+01 a.93.1.1 18617 1cg1A 431 1.31e+01 1adeA c.37.1.10 32223 1qf5A 431 1.32e+01 1adeA c.37.1.10 32212 1adeA 431 1.32e+01 1adeA c.37.1.10 32213 1cg4A 431 1.32e+01 1adeA c.37.1.10 32228 1kkbA 432 1.32e+01 c.37.1.10 72643 1dgfA 497 1.34e+01 1cf9A e.5.1.1 42782 1dghA 498 1.34e+01 1cf9A e.5.1.1 42790 1dghB 498 1.36e+01 1cf9A e.5.1.1 42791 3bdeA 120 1.36e+01 4ccpA 296 1.36e+01 a.93.1.1 18626 1f4jA 527 1.44e+01 1cf9A e.5.1.1 42798 1wfyA 104 1.45e+01 d.15.1.5 114597 2nykA 285 1.46e+01 1cmuA 294 1.47e+01 a.93.1.1 18630 2f4iA 197 1.48e+01 b.40.11.1 132923 2ccpA 296 1.49e+01 a.93.1.1 18610 2pxxA 215 1.49e+01 1dseA 292 1.50e+01 1ryc a.93.1.1 59130 1cpeA 296 1.50e+01 a.93.1.1 18623 1ccbA 297 1.53e+01 a.93.1.1 18631 1ccjA 294 1.53e+01 a.93.1.1 18644 2yziA 138 1.55e+01 1cpgA 296 1.56e+01 a.93.1.1 18628 1kxmA 290 1.57e+01 a.93.1.1 73156 2eutA 294 1.58e+01 a.93.1.1 132407 1cccA 297 1.58e+01 a.93.1.1 18611 1kxnA 289 1.58e+01 a.93.1.1 73157 1ccaA 297 1.60e+01 a.93.1.1 18602 2bcnA 296 1.60e+01 a.93.1.1 128299 1cclA 291 1.63e+01 a.93.1.1 18608 2cepA 296 1.64e+01 a.93.1.1 18633 2gb8A 294 1.64e+01 a.93.1.1 134909 1cckA 291 1.67e+01 a.93.1.1 18622 4ccxA 294 1.73e+01 a.93.1.1 18606 1a2gA 291 1.74e+01 a.93.1.1 18620 1dccA 296 1.74e+01 a.93.1.1 18613 1cyfA 296 1.74e+01 a.93.1.1 18641 3ccxA 294 1.76e+01 a.93.1.1 18637 2higA 487 1.78e+01 2f0yA 379 1.80e+01 a.118.6.1 132681 1ds4A 292 1.80e+01 1ryc a.93.1.1 59129 1a2fA 291 1.80e+01 a.93.1.1 18619 2h6fA 382 1.81e+01 a.118.6.1 136185 1tn6A 382 1.81e+01 a.118.6.1 112527 1ccgA 291 1.81e+01 a.93.1.1 18627 2zkqm 152 1.82e+01 3b43A 570 1.97e+01 1cw3A 494 1.99e+01 1bpwA c.82.1.1 35349 2onpA 500 2.00e+01 1zumA 500 2.00e+01 1o02A 500 2.00e+01 c.82.1.1 86499 1o04A 500 2.01e+01 c.82.1.1 86508 5ccpA 296 2.02e+01 a.93.1.1 18615 2ga9D 469 2.04e+01 1sy7A 715 2.05e+01 c.23.16.3 112161 1gehA 444 2.05e+01 c.1.14.1 65181 d.58.9.1 65182 2cq4A 114 2.10e+01 d.58.7.1 130715 1wrmA 165 2.16e+01 1cc5A 83 2.18e+01 a.3.1.1 15901 1xksA 450 2.22e+01 b.69.14.1 115422 1mkrA 294 2.23e+01 a.93.1.1 84997 1wu8A 256 2.29e+01 2c4mA 796 2.48e+01 1bi9A 499 2.50e+01 1bpwA c.82.1.1 35337 2ysrA 105 2.50e+01 2a19B 284 2.50e+01 2anzA 294 2.60e+01 a.93.1.1 127064 2rbtX 292 2.63e+01 1bejA 291 2.64e+01 a.93.1.1 18638 1bemA 291 2.67e+01 a.93.1.1 18635 1s6vA 294 2.76e+01 a.93.1.1 98609 1bj9A 291 2.78e+01 a.93.1.1 18636 1z53A 294 2.83e+01 a.93.1.1 124449 1besA 291 2.89e+01 a.93.1.1 18612 1jciA 294 2.91e+01 a.93.1.1 71632 1rblA 467 2.91e+01 1burA c.1.14.1 29380 d.58.9.1 39286 2eqmA 88 2.93e+01 1tq6A 413 2.93e+01 c.37.1.8 107202 1tqdA 413 2.93e+01 c.37.1.8 107222 2bd0A 244 2.99e+01 c.2.1.2 128321 1tpzA 422 3.00e+01 c.37.1.8 107194 1zghA 260 3.01e+01 b.46.1.1 125028 c.65.1.1 125029 1krjA 294 3.05e+01 a.93.1.1 68852 1rscA 472 3.08e+01 1burA c.1.14.1 29381 d.58.9.1 39287 1wkbA 810 3.09e+01 2gsqA 202 3.11e+01 a.45.1.1 17715 c.47.1.5 33009 2rcnA 358 3.26e+01 1jdrA 294 3.31e+01 1ryc a.93.1.1 62908 2qw5A 335 3.36e+01 1gv7A 123 3.44e+01 d.5.1.1 70595 2e3dA 302 3.45e+01 1sogA 294 3.46e+01 a.93.1.1 105844 2drpA 66 3.48e+01 2drpA g.37.1.1 45026 g.37.1.1 45027 1h8aC 128 3.48e+01 a.4.1.3 65731 a.4.1.3 65732 1tq4A 413 3.51e+01 c.37.1.8 107201 1stqA 294 3.52e+01 a.93.1.1 106008 2ia8A 291 3.53e+01 3cecA 104 3.54e+01 1hjxA 362 3.60e+01 c.1.8.5 83512 d.26.3.1 83513 1dkfB 235 3.64e+01 2lbd a.123.1.1 19281 1zy9A 564 3.65e+01 b.30.5.11 125813 c.1.8.13 125814 1kutA 230 3.70e+01 d.143.1.1 73017 1pm6A 72 3.71e+01 a.6.1.7 94894 1f97A 212 3.81e+01 1f97A b.1.1.1 19763 b.1.1.4 21764 1p3qQ 54 3.82e+01 a.5.2.4 87748 2oayA 390 3.85e+01 2i9uA 439 3.87e+01 1gdhA 320 3.93e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355