# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1gt91 357 4.97e-01 1hrzA 76 1.07e+00 1hryA a.21.1.1 16430 1ha2A 585 1.29e+00 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 2cb5A 453 1.60e+00 3gcb d.3.1.1 37035 1hryA 76 1.77e+00 1hryA a.21.1.1 16429 1kk6A 209 1.82e+00 b.81.1.3 68657 1akhA 61 2.02e+00 1akhA a.4.1.1 15980 1fadA 99 2.33e+00 1fadA a.77.1.1 18428 1f43A 61 2.36e+00 1akhA a.4.1.1 15982 1eqfA 280 2.84e+00 1eqfA a.29.2.1 16972 a.29.2.1 16973 2thiA 379 2.96e+00 2thiA c.94.1.1 35794 1b25A 619 3.18e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1ayl 541 3.20e+00 1ayl c.91.1.1 64718 c.109.1.1 64719 1ggqA 174 3.21e+00 1ggqA a.24.12.1 60486 1rxr 83 3.93e+00 2nllB g.39.1.2 45114 1pbwA 216 3.98e+00 1pbwA a.116.1.1 19103 1hsm 79 4.23e+00 1cktA a.21.1.1 16421 1flcB 175 4.84e+00 1flcB h.3.1.1 45716 1j78A 458 5.07e+00 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1jj2I 145 5.10e+00 1ffkG c.21.1.1 63094 1rfa 79 5.53e+00 1c1yB d.15.1.5 37620 1ffkG 145 5.56e+00 1ffkG c.21.1.1 31035 1b3jA 274 5.58e+00 1agdA b.1.1.2 20855 d.19.1.1 38319 1lb6A 160 5.59e+00 1dszB 85 5.74e+00 2nllB g.39.1.2 45108 1e7aA 585 5.82e+00 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 2nllB 103 6.43e+00 2nllB g.39.1.2 45115 1dxrL 273 6.48e+00 6prcL f.2.1.2 43431 2nllA 66 6.64e+00 2nllB g.39.1.2 45109 1ao6A 585 6.74e+00 1bj5 a.126.1.1 19354 a.126.1.1 19355 a.126.1.1 19356 1blxA 326 6.85e+00 1hcl d.144.1.1 41596 1bj5 585 7.39e+00 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1k7hA 476 7.47e+00 1ks9A 291 7.47e+00 a.100.1.7 68857 c.2.1.6 68858 6prcL 273 7.70e+00 6prcL f.2.1.2 43434 1eijA 80 7.76e+00 1eijA a.5.6.1 16298 1gzgA 337 7.88e+00 1kanA 253 7.91e+00 1knyA e.9.1.3 43234 1b4kA 337 8.58e+00 1b4kA c.1.10.3 29184 1oen 540 8.60e+00 1ayl c.91.1.1 64750 c.109.1.1 64751 1bolA 222 8.86e+00 1bolA d.124.1.1 41120 1c3oA 1073 9.43e+00 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1xo1A 291 9.72e+00 1exnA a.60.7.1 18086 c.53.1.2 33356 1yrnA 61 9.91e+00 1akhA a.4.1.1 15981 1gmlA 178 9.93e+00 1h80A 464 1.04e+01 b.80.1.8 65714 1c3oC 1073 1.09e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 3thiA 371 1.15e+01 2thiA c.94.1.1 35792 1c3oE 1073 1.16e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 7taa 478 1.17e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1bqz 77 1.18e+01 1bqz a.2.3.1 15699 1b8xA 280 1.23e+01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1kncA 177 1.26e+01 a.152.1.1 68703 1bdb 277 1.27e+01 1bdb c.2.1.2 29874 1ej3A 191 1.28e+01 1ej3A a.39.1.5 17259 1rpl 251 1.31e+01 1bpyA e.9.1.1 43212 1cnt1 187 1.33e+01 1cnt3 1hcqA 84 1.36e+01 2nllB g.39.1.2 45117 1a8h 500 1.37e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1hme 77 1.38e+01 1cktA a.21.1.1 16418 1latA 82 1.43e+01 2nllB g.39.1.2 45122 1keeG 1073 1.49e+01 a.92.1.1 68516 c.24.1.1 68517 c.30.1.1 68518 c.30.1.1 68519 d.142.1.2 68520 d.142.1.2 68521 1keeA 1073 1.57e+01 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1c3oG 1073 1.57e+01 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 1keeC 1073 1.58e+01 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1keeE 1073 1.60e+01 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1jdbB 1073 1.62e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1tiiD 99 1.64e+01 1tiiD b.40.2.1 24965 3pflA 759 1.67e+01 1cm5A c.7.1.1 30673 2pflA 759 1.69e+01 1cm5A c.7.1.1 30675 1in6A 334 1.70e+01 1hqcA a.4.5.11 62601 c.37.1.13 62602 2a3dA 73 1.74e+01 2a3dA k.9.1.1 46424 1cm5A 759 1.75e+01 1cm5A c.7.1.1 30671 1lnh 857 1.87e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1ecd 136 1.88e+01 1flp a.1.1.2 15211 1pbv 195 1.91e+01 1pbv a.118.3.1 19179 1mmq 170 1.99e+01 1hfc d.92.1.11 40396 2af8 86 2.03e+01 2af8 a.28.1.1 16933 1h96A 182 2.06e+01 2fha a.25.1.1 60811 1kxpD 458 2.14e+01 1c17M 177 2.17e+01 1c17M f.2.1.4 43648 1bzyA 217 2.20e+01 1qk3A c.61.1.1 34071 1dmwA 307 2.20e+01 4pah d.178.1.1 42580 1j8uA 325 2.27e+01 1exnA 290 2.32e+01 1exnA a.60.7.1 18088 c.53.1.2 33358 1a9xA 1058 2.43e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1dhs 344 2.51e+01 1dhs c.31.1.1 31727 3bdpA 580 2.55e+01 1xwl c.55.3.5 33711 e.8.1.1 43004 1eca 136 2.55e+01 1flp a.1.1.2 15209 1irqA 71 2.59e+01 a.43.1.2 66297 1c1yB 77 2.60e+01 1c1yB d.15.1.5 37618 1rdr 461 2.64e+01 1rdr e.8.1.4 43116 4pah 308 2.64e+01 4pah d.178.1.1 42576 1guaB 81 2.68e+01 1c1yB d.15.1.5 37619 1nzyA 269 2.68e+01 1nzyA c.14.1.3 30903 1eco 136 2.70e+01 1flp a.1.1.2 15208 1gotG 73 2.73e+01 1tbgE a.137.3.1 19629 1tme1 274 2.73e+01 2mev1 1jj2F 119 2.74e+01 1ffkE d.79.3.1 63091 2bdpA 580 2.78e+01 1xwl c.55.3.5 33709 e.8.1.1 43002 2btvA 901 2.87e+01 2btvA e.28.1.1 43376 1ek8A 185 2.89e+01 1ek8A d.67.3.1 59444 1cmkE 350 2.91e+01 1cdkA d.144.1.1 41623 1eqoA 158 2.94e+01 1hka d.58.30.1 39432 1cs0C 1073 2.96e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1awcA 110 2.99e+01 1awcA a.4.5.21 16167 1xwl 580 3.05e+01 1xwl c.55.3.5 33708 e.8.1.1 43001 1dszA 86 3.14e+01 2nllB g.39.1.2 45129 1pah 308 3.16e+01 4pah d.178.1.1 42578 1apmE 350 3.17e+01 1cdkA d.144.1.1 41628 3pcgM 238 3.18e+01 3pchM b.3.6.1 22742 1cozA 129 3.19e+01 1cozA c.26.1.2 31598 1ft1A 377 3.23e+01 1ft1A a.118.6.1 19186 1aj8A 371 3.26e+01 1aj8A a.103.1.1 18900 1d1qA 161 3.30e+01 1dg9A c.44.1.1 32642 1mb1 130 3.34e+01 1bm8 d.34.1.1 38529 1e1dA 553 3.35e+01 1e1dA e.26.1.1 43363 1gtrA 553 3.37e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 1hw6A 278 3.42e+01 1frb c.1.7.1 61296 1h6oA 204 3.51e+01 a.146.1.1 60689 1k2yX 463 3.55e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1fxxA 482 3.56e+01 1fxxA c.55.3.5 33726 1qtqA 553 3.58e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1in4A 334 3.63e+01 1hqcA a.4.5.11 62597 c.37.1.13 62598 1h3oA 75 3.64e+01 1tbgE 68 3.70e+01 1tbgE a.137.3.1 19630 1ffkE 119 3.71e+01 1ffkE d.79.3.1 39812 1zfo 31 3.95e+01 g.39.1.4 45149 1h8aC 128 4.00e+01 a.4.1.3 65731 a.4.1.3 65732