# List of top-scoring protein chains for t2k-100-30-bys-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 3cghA 516 9.55e-52 a.118.8.6 156618 3gzsA 515 6.81e-49 3ejnA 474 1.65e-47 a.118.8.6 158180 3ehmA 532 3.05e-44 3fdhA 499 5.48e-38 3kezA 461 4.01e-31 3jq0A 493 2.21e-30 3jq1A 481 5.72e-30 3i4gA 528 1.39e-29 3ihvA 535 5.06e-28 3iv0A 481 6.55e-28 3l22A 441 3.42e-26 3lewA 495 1.07e-25 3hdxA 478 1.50e-24 3ckcA 527 1.94e-23 a.118.8.6 156736 3jysA 499 3.36e-23 2wqhA 125 1.38e-02 1na3A 91 1.05e-01 k.38.1.1 85481 2avpA 70 1.55e+00 k.38.1.1 127382 2i3oA 516 1.67e+00 d.153.1.6 137027 1upkA 341 2.22e+00 a.118.1.15 99758 2dg5A 366 2.35e+00 d.153.1.6 131500 1ng1 294 2.61e+00 1ng1 2r3aA 300 2.62e+00 2rbdA 171 2.66e+00 1wm5A 208 2.94e+00 a.118.8.1 121028 1ls1A 295 3.32e+00 a.24.13.1,c.37.1.10 78170,78171 1dbfA 127 3.53e+00 2chsA d.79.1.2 39761 1e96B 203 3.70e+00 1e96B a.118.8.1 19211 1jpnA 296 3.88e+00 a.24.13.1,c.37.1.10 67039,67040 1hh8A 213 4.08e+00 1e96B a.118.8.1 61042 1wovA 250 4.14e+00 a.132.1.1 121124 2e01A 457 4.20e+00 2e9yA 316 5.18e+00 2fymA 431 5.21e+00 c.1.11.1,d.54.1.1 134379,134380 1nxcA 478 5.51e+00 a.102.2.1 92293 3gcb 470 6.21e+00 3gcb 3gcbA 470 6.21e+00 d.3.1.1 37032 1gcyA 527 6.41e+00 1jdc b.71.1.1,c.1.8.1 27788,28775 1ncx 162 7.23e+00 1ncx 1gcb 454 8.53e+00 3gcb 1topA 162 8.96e+00 a.39.1.5 17223 3czgA 644 9.55e+00 2i7cA 283 1.00e+01 1zynA 202 1.05e+01 c.47.1.2,c.47.1.2 125838,125839 1h80A 464 1.10e+01 b.80.1.8 65714 1qtqA 553 1.17e+01 1gtrA b.53.1.2,c.26.1.1 26940,31579 2zxcA 646 1.21e+01 2bjkA 516 1.21e+01 1j3nA 408 1.22e+01 c.95.1.1,c.95.1.1 84074,84075 1dysA 348 1.23e+01 1bvwA c.6.1.1 30669 1uzbA 516 1.26e+01 c.82.1.1 100220 1ujwB 135 1.33e+01 h.4.9.1 99472 1gtrA 553 1.37e+01 1gtrA b.53.1.2,c.26.1.1 26939,31578 1jnyA 435 1.37e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1jdc 429 1.42e+01 1jdc 1jdcA 429 1.42e+01 b.71.1.1,c.1.8.1 27789,28776 1lfwA 470 1.53e+01 c.56.5.4,d.58.19.1 77942,77943 2cihA 183 1.55e+01 1vpwA 340 1.57e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1wzdA 215 1.62e+01 a.132.1.1 121493 1duvG 333 1.67e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1jftA 340 1.70e+01 a.35.1.5,c.93.1.1 66652,66653 1qpzA 340 1.76e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1d0nA 729 1.85e+01 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 2kd1A 118 1.88e+01 2wwwA 349 1.92e+01 2o2kA 355 1.98e+01 1iw0A 215 2.02e+01 a.132.1.1 83720 3ipkA 497 2.03e+01 2ywdA 191 2.13e+01 1zthA 258 2.13e+01 1gzsB 165 2.13e+01 a.168.1.1 76425 1gpl 432 2.15e+01 1gpl 1gplA 432 2.15e+01 b.12.1.2,c.69.1.19 23645,34793 3m6wA 464 2.15e+01 2ekgA 327 2.20e+01 2z3qA 119 2.24e+01 a.26.1.2 154002 1a5cA 368 2.25e+01 1fbaA c.1.10.1 29148 1om2A 95 2.27e+01 1om2A a.23.4.1 16520 3gjwA 350 2.40e+01 3dmsA 427 2.44e+01 3kvoA 346 2.54e+01 2vw2A 697 2.54e+01 3fvyA 728 2.55e+01 2fuvA 549 2.58e+01 1dl2A 511 2.58e+01 1dl2A a.102.2.1 18844 2cqsA 842 2.59e+01 3e1sA 574 2.64e+01 1mw7A 240 2.65e+01 e.39.1.1 79557 2b5dX 528 2.72e+01 a.8.3.3,c.6.2.4 127886,127887 1pxvA 183 2.84e+01 d.3.1.1 95301 2fha 183 2.84e+01 2fha 1rztA 331 2.89e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1hyuA 521 2.90e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1uteA 313 2.91e+01 1uteA d.159.1.1 42078 3c3yA 237 2.94e+01 2dtxA 264 2.95e+01 1nb9A 147 2.97e+01 b.43.5.1 85515 2btzA 394 2.99e+01 1jh3A 107 3.04e+01 d.66.1.4 71661 2j4dA 525 3.05e+01 1bif 469 3.09e+01 1bif 1bifA 469 3.09e+01 c.37.1.7,c.60.1.4 31961,34003 1ya0A 497 3.11e+01 a.118.8.1 122785 2afaA 425 3.14e+01 a.102.1.3 126668 2zs0B 142 3.14e+01 3kl4A 433 3.14e+01 1h16A 759 3.15e+01 c.7.1.1 76462 3hx0A 335 3.15e+01 1mi4A 427 3.17e+01 d.68.2.2 79141 1g6sA 427 3.17e+01 1eps d.68.2.2 39584 3bifA 468 3.21e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1izoA 417 3.23e+01 a.104.1.1 83851 3eprA 264 3.24e+01 3a5cG 223 3.25e+01 2zfoB 142 3.26e+01 2bifA 469 3.32e+01 1bif c.37.1.7,c.60.1.4 31963,34009 2b7oA 464 3.38e+01 c.1.10.8 128047 1wdkC 390 3.39e+01 c.95.1.1,c.95.1.1 109258,109259 1rwhA 757 3.40e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 2hldG 278 3.46e+01 3dkhA 559 3.46e+01 3jrtA 192 3.49e+01 3fjzA 427 3.50e+01 2axtB 510 3.55e+01 f.55.1.1 144927 2q9oA 559 3.56e+01 b.6.1.3,b.6.1.3,b.6.1.3 150149,150150,150151 1y4hA 188 3.57e+01 d.3.1.1 122615 2pidA 356 3.60e+01 1t5oA 351 3.61e+01 c.124.1.5 106459 3k5bA 188 3.70e+01 1cm5A 759 3.76e+01 1cm5A c.7.1.1 30671 2jkbA 686 3.76e+01 1kkhA 317 3.81e+01 d.14.1.5,d.58.26.3 72645,72646 1fwxA 595 3.86e+01 b.6.1.4,b.69.3.1 60069,60070 1iab 200 3.89e+01 1iae 1iabA 200 3.89e+01 d.92.1.8 40312 2ix4A 431 3.91e+01 c.95.1.1,c.95.1.1 137759,137760 3kg7A 293 4.00e+01 2bcqA 335 4.00e+01 a.60.6.1,a.60.12.1,d.218.1.2 128304,128305,128306 3gn6A 321 4.03e+01 2is6A 680 4.04e+01 3edtB 283 4.09e+01 3a9sA 595 4.09e+01 1dmuA 299 4.12e+01 1dmuA c.52.1.4 33294 2zwsA 646 4.14e+01 2zblA 421 4.27e+01 2kpqA 100 4.34e+01 2zdsA 340 4.36e+01 3kz9A 206 4.38e+01 1eps 427 4.42e+01 1eps 2e4uA 555 4.44e+01 3dp7A 363 4.51e+01 2ih8A 559 4.52e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 1f9xA 120 4.52e+01 1g3fA g.52.1.1 59748 3gzdA 440 4.59e+01 2p58A 65 4.61e+01 3a11A 338 4.62e+01 1d3yA 301 4.66e+01 1d3yA e.12.1.1 43252 2x42A 721 4.66e+01 2d2mB 142 4.68e+01 3hfxA 504 4.68e+01 1bpwA 503 4.71e+01 1bpwA c.82.1.1 35365 2ixsA 323 4.75e+01 3duwA 223 4.76e+01 2i1yA 301 4.83e+01 1kutA 230 4.88e+01 d.143.1.1 73017 1udcA 338 4.91e+01 c.2.1.2 29785 1efyA 350 4.98e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1wt4A 73 4.98e+01 1iu9A 111 4.99e+01 c.78.2.1 90694 2wiyA 394 5.01e+01 1jeyB 565 5.01e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 2avwA 311 5.07e+01 1dbqA 289 5.14e+01 1qpzA c.93.1.1 35666 1xel 338 5.14e+01 1xel 2ffjA 300 5.14e+01 e.50.1.1 133387 2hcfA 234 5.15e+01 c.108.1.6 136333 1f3lA 321 5.18e+01 1g6q2 c.66.1.6 59630 1z8gA 372 5.24e+01 b.47.1.2,d.170.1.2 124697,124698 2dg6A 222 5.35e+01 2pefA 373 5.44e+01 3dmeA 369 5.51e+01 2fytA 340 5.53e+01 c.66.1.6 134391 2x41A 721 5.53e+01 1wmwA 330 5.55e+01 1iae 200 5.57e+01 1iae 2oaaA 249 5.67e+01 1hplA 449 5.69e+01 1gpl b.12.1.2,c.69.1.19 23639,34787 1dmhA 311 5.76e+01 1dmhA b.3.6.1 22633 1m7vA 363 5.80e+01 d.174.1.1 78748 1c0pA 363 5.80e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1udbA 338 5.85e+01 c.2.1.2 29787 1o9iA 266 5.92e+01 a.25.1.3 92671 3d6nB 291 5.96e+01 3iegA 359 6.02e+01 1f89A 291 6.03e+01 d.160.1.1 64988 3ga4A 178 6.15e+01 3ek1A 504 6.17e+01 2chcA 170 6.17e+01 d.17.4.25 146394 3f6nA 129 6.18e+01 2g8lA 299 6.18e+01 e.50.1.1 134775 1jkvA 266 6.19e+01 a.25.1.3 71719 2v1tA 73 6.23e+01 1f8yA 157 6.27e+01 1f8xA c.23.14.1 31395 2b1mA 246 6.30e+01 2zqqA 272 6.32e+01 2cu1A 103 6.43e+01 d.15.2.2 130802 2wbqA 358 6.43e+01 1kzlA 208 6.46e+01 b.43.4.3,b.43.4.3 77635,77636 3icfA 335 6.46e+01 2c7yA 404 6.59e+01 1k7jA 206 6.70e+01 d.115.1.1 72103 3hwkA 414 6.85e+01 1f8xA 157 6.98e+01 1f8xA c.23.14.1 31397 1ufaA 520 7.01e+01 a.8.3.3,c.6.2.4 99329,99330 1f4pA 147 7.04e+01 5nul c.23.5.1 59651 2wj6A 276 7.08e+01 1qfcA 306 7.18e+01 1uteA d.159.1.1 42077 2du3A 534 7.24e+01 2nptB 100 7.24e+01 d.15.2.2 138449 2lefA 86 7.24e+01 2lefA a.21.1.1 16433 1pb1A 416 7.27e+01 c.77.1.1 88014 1ockA 412 7.32e+01 c.117.1.1 86802 1xdpA 687 7.36e+01 a.7.15.1,d.322.1.2,d.136.1.4,d.136.1.4 121896,121897,121898,121899 3evzA 230 7.37e+01 1ahjA 207 7.45e+01 2ahjA d.149.1.1 41774 3bjaA 139 7.52e+01 1hdmA 201 7.56e+01 1iakA b.1.1.2,d.19.1.1 21583,38157 3ephA 409 7.68e+01 3jz4A 481 7.70e+01 2w19A 472 7.81e+01 1k7hA 476 7.90e+01 c.76.1.1 72101 1g6q2 328 7.97e+01 1g6q2