# List of top-scoring protein chains for t2k.100-30-dssp-ebghstl 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 2q1mA 130 5.10e-01 1pfo 500 5.36e-01 1pfo 1pfoA 500 5.36e-01 f.9.1.1 43826 1tdhA 364 5.38e-01 a.156.1.2 106772 b.113.1.1 106773 g.39.1.8 106774 3b93A 133 6.39e-01 2iwxA 214 7.25e-01 d.122.1.1 137758 1s3rA 535 7.27e-01 2breA 219 7.57e-01 d.122.1.1 128994 1fnhA 271 8.54e-01 1fnhA b.1.2.1 21976 b.1.2.1 21977 b.1.2.1 21978 2hesX 330 1.04e+00 2rb6A 61 1.09e+00 1dt9A 437 1.37e+00 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1bnzA 64 1.68e+00 1azpA b.34.13.1 37468 2q8oA 136 1.73e+00 2fxqA 264 1.77e+00 1suuA 312 1.86e+00 b.68.10.1 99006 3d2lA 243 2.16e+00 2gu9A 113 2.49e+00 2o9uX 97 2.58e+00 d.17.1.1 138960 2ra2A 64 2.63e+00 2prdA 174 2.69e+00 b.40.5.1 25435 2v72A 143 2.76e+00 2frqA 225 2.89e+00 d.3.1.1 133999 1iscA 192 3.24e+00 1avmA a.2.11.1 15733 d.44.1.1 38726 1hd5A 213 3.44e+00 2eng b.52.1.1 26896 2qcuA 501 3.53e+00 1cruA 454 3.53e+00 1c9uA b.68.2.1 27617 2eng 210 3.59e+00 2eng 2engA 210 3.59e+00 b.52.1.1 26895 1xyiA 66 4.35e+00 2fk9A 157 4.58e+00 1m2aA 110 4.68e+00 c.47.1.11 78472 1m2bA 110 4.99e+00 c.47.1.11 78474 1azpA 66 5.08e+00 1azpA b.34.13.1 37467 1xd5A 112 5.09e+00 b.78.1.1 115155 2nybA 192 5.16e+00 a.2.11.1 138804 d.44.1.1 138805 2f7tA 227 5.20e+00 2f2aB 483 5.21e+00 a.182.1.2 132802 d.128.1.5 132803 2cxvA 219 5.38e+00 b.47.1.4 131012 2halA 212 5.59e+00 b.47.1.4 136289 1z3qA 200 5.92e+00 1fnyA 237 6.01e+00 1led b.29.1.1 59920 2b0vA 153 6.04e+00 d.113.1.1 127650 2i5vO 251 6.17e+00 2uurA 245 6.26e+00 3b77A 193 6.31e+00 2p9rA 102 6.55e+00 2g8cO 251 6.63e+00 1nofA 383 6.83e+00 b.71.1.2 92020 c.1.8.3 92021 1d5rA 324 7.15e+00 1d5rA b.7.1.1 23181 c.45.1.1 32697 2v0uA 146 7.24e+00 2gu3A 136 7.47e+00 1nqcA 217 7.52e+00 d.3.1.1 86024 3cloA 258 7.74e+00 1molA 94 7.74e+00 1molA d.17.1.1 37988 1bf4A 63 7.82e+00 1azpA b.34.13.1 37461 1i40A 175 7.84e+00 b.40.5.1 66024 1fnmA 691 8.08e+00 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 3bb7A 321 8.28e+00 2cohA 202 8.49e+00 a.4.5.4 130677 b.82.3.2 130678 2zcwA 202 8.49e+00 2h7jA 220 8.61e+00 d.3.1.1 136216 2ft6A 124 8.65e+00 2oy7A 320 8.77e+00 1m2dA 110 8.85e+00 c.47.1.11 78476 2bghA 421 8.98e+00 3bduA 62 9.04e+00 1zxzA 197 9.08e+00 2h6oA 470 9.14e+00 1q7hA 153 9.32e+00 b.122.1.1 96042 d.17.6.2 96043 1jq4A 98 9.39e+00 d.15.4.2 67083 1havA 217 9.62e+00 1havA b.47.1.4 26423 2d4yA 463 9.68e+00 1qw9A 502 9.90e+00 b.71.1.2 96466 c.1.8.3 96467 1vpmA 169 9.95e+00 d.38.1.1 113967 1m1sA 116 9.98e+00 b.1.11.2 84747 1x8qA 184 1.01e+01 b.60.1.1 114966 1e69B 322 1.03e+01 1e69B c.37.1.12 32377 1b88A 114 1.04e+01 1tcrA b.1.1.1 20608 2df7A 458 1.05e+01 b.121.4.9 131449 1lqyA 184 1.05e+01 d.167.1.1 74212 1cc3A 130 1.06e+01 1nwpA b.6.1.1 23008 1pdr 99 1.07e+01 1pdr 1gv3A 248 1.08e+01 a.2.11.1 70585 d.44.1.1 70586 1pcfA 66 1.09e+01 1pcfA d.18.1.1 38142 2au7A 175 1.10e+01 2pdrA 149 1.10e+01 2hkdA 320 1.11e+01 2fvgA 340 1.12e+01 b.49.3.1 134201 c.56.5.4 134202 2pd8A 149 1.13e+01 1te7A 103 1.17e+01 b.122.1.7 112404 2pefA 373 1.17e+01 1gmiA 136 1.19e+01 b.7.1.1 65309 2aieP 203 1.22e+01 2oulA 241 1.22e+01 1nb8A 353 1.23e+01 d.3.1.9 80385 3cc6A 281 1.24e+01 2bm0A 691 1.24e+01 b.43.3.1 128748 c.37.1.8 128749 d.14.1.1 128750 d.58.11.1 128751 d.58.11.1 128752 1siqA 392 1.29e+01 a.29.3.1 105585 e.6.1.1 105586 1fhgA 154 1.31e+01 1tlk b.1.1.4 21706 2z3zA 706 1.32e+01 1ughI 82 1.33e+01 1ugiA d.17.5.1 38133 1c8cA 64 1.33e+01 1azpA b.34.13.1 59084 2q7aA 152 1.33e+01 2z1cA 75 1.37e+01 1svpA 161 1.37e+01 1svpA b.47.1.3 26384 2uwiA 142 1.41e+01 1qtrA 317 1.44e+01 1qtrA c.69.1.7 34660 2d5lA 706 1.45e+01 1lm8C 96 1.47e+01 d.42.1.1 74034 1tlk 154 1.52e+01 1tlk 1erxA 184 1.53e+01 1np1A b.60.1.1 27164 1wm1A 317 1.55e+01 c.69.1.7 109405 1dar 691 1.56e+01 1dar 1x9lA 149 1.57e+01 b.2.10.1 109528 1sy3A 184 1.60e+01 b.60.1.1 106110 2f68X 313 1.60e+01 1xe0A 114 1.62e+01 b.121.3.1 115197 2a46A 238 1.64e+01 1kj1D 109 1.64e+01 b.78.1.1 68639 1lm6A 215 1.65e+01 d.167.1.1 84628 1m6kA 251 1.67e+01 e.3.1.1 78695 1wpxB 220 1.67e+01 1qr4A 186 1.69e+01 1qr4B b.1.2.1 21986 b.1.2.1 21987 2cgpA 210 1.70e+01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1gsoA 431 1.70e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1qr4B 186 1.70e+01 1qr4B b.1.2.1 21988 b.1.2.1 21989 1udiI 83 1.70e+01 1ugiA d.17.5.1 38124 1f37A 110 1.76e+01 1f37A c.47.1.11 33088 1m3iA 471 1.76e+01 f.9.1.1 91178 1be9A 119 1.76e+01 1pdr b.36.1.1 24774 2f4nA 273 1.78e+01 1ugiA 84 1.81e+01 1ugiA d.17.5.1 38125 1ykjA 394 1.83e+01 2uubL 135 1.86e+01 b.40.4.5 139943 1nciA 110 1.88e+01 1edhA b.1.6.1 22191 2he2A 102 1.88e+01 1g2rA 100 1.91e+01 1g2rA d.192.1.1 60231 2qngA 199 1.92e+01 1t17A 148 1.95e+01 d.129.3.6 112215 2h41A 95 1.97e+01 2e7dA 131 2.00e+01 1xvsA 126 2.04e+01 b.1.23.1 116095 2ipiA 521 2.07e+01 2b1mA 246 2.10e+01 1wgrA 100 2.13e+01 d.15.1.5 114621 2iufA 688 2.14e+01 1z47A 355 2.14e+01 2j73A 103 2.19e+01 1b69A 69 2.19e+01 2bb8 d.10.1.1 37479 2pe3A 354 2.24e+01 1h6lA 353 2.24e+01 b.68.3.1 60687 2r78A 117 2.24e+01 2biwA 490 2.26e+01 1ag0A 129 2.26e+01 1nwpA b.6.1.1 23001 2icuA 229 2.27e+01 1gyhA 318 2.29e+01 b.67.2.1 70757 1np1A 184 2.29e+01 1np1A b.60.1.1 27155 1azrA 128 2.29e+01 1nwpA b.6.1.1 22983 1jzgA 128 2.30e+01 b.6.1.1 67855 2ih3B 212 2.32e+01 1mpyA 307 2.34e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509 1gydB 315 2.35e+01 b.67.2.1 70751 1fepA 724 2.35e+01 1fepA f.4.3.3 43808 2jozA 135 2.36e+01 1s4uX 407 2.36e+01 b.69.4.1 112027 1viwB 198 2.41e+01 1led b.29.1.1 24170 1s31A 273 2.42e+01 1i82A 189 2.42e+01 1i82A b.1.9.2 61937 1xe1A 116 2.42e+01 b.43.3.1 109571 3c2qA 345 2.44e+01 1xoyA 161 2.44e+01 b.18.1.26 115718 1kv9A 668 2.44e+01 a.3.1.6 73056 b.70.1.1 73057 1u5fA 148 2.45e+01 b.55.1.1 119542 1r17A 343 2.45e+01 b.2.3.4 96796 b.2.3.4 96797 1h5yA 253 2.45e+01 c.1.2.1 65638 2vgdA 218 2.45e+01 1tp5A 119 2.46e+01 b.36.1.1 119305 2v6vA 156 2.46e+01 1g6nA 210 2.50e+01 2cgpA a.4.5.4 16100 b.82.3.2 28139 1k0iA 394 2.51e+01 c.3.1.2 67942 d.16.1.2 67943 2v5iA 559 2.52e+01 1nx8A 273 2.55e+01 b.82.2.8 86374 2vqeL 135 2.59e+01 2avwA 311 2.60e+01 1ou8A 111 2.61e+01 b.136.1.1 93543 2rcfA 91 2.63e+01 1bbxC 63 2.67e+01 1azpA b.34.13.1 37465 2fnjC 96 2.69e+01 d.42.1.1 133820 3cjxA 165 2.73e+01 1sq9A 397 2.74e+01 b.69.4.1 105889 2okfA 140 2.74e+01 2oklA 185 2.75e+01 2cu9A 161 2.78e+01 1y08A 323 2.80e+01 d.3.1.12 116280 2pbeA 294 2.80e+01 1tp6A 128 2.81e+01 d.17.4.12 107184 1bb8 71 2.83e+01 2bb8 1bb8A 71 2.83e+01 d.10.1.1 37478 1nwpA 128 2.85e+01 1nwpA b.6.1.1 23011 1ryp1 222 2.85e+01 1ryp1 1i8aA 189 2.87e+01 1i82A b.1.9.2 61951 1e2wA 251 2.90e+01 1hcz b.2.6.1 22466 b.84.2.2 28252 2pooA 355 2.91e+01 1qlgA b.68.3.1 27626 1keqA 248 2.91e+01 b.74.1.1 72387 3bjsA 428 2.94e+01 1zc3B 113 3.00e+01 b.55.1.1 124881 2i02A 148 3.01e+01 b.45.1.1 136936 1ld4A 264 3.02e+01 i.6.1.1 77886 2vqiA 515 3.03e+01 1s5pA 235 3.07e+01 c.31.1.5 98569 2inbA 140 3.09e+01 1uldA 150 3.12e+01 b.29.1.3 99545 1ospL 214 3.16e+01 32c2A b.1.1.1 20116 b.1.1.2 21146 1gpr 162 3.17e+01 1gpr 1gprA 162 3.17e+01 b.84.3.1 28267 1ouwA 152 3.24e+01 b.77.3.1 93571 1qlgA 355 3.25e+01 1qlgA b.68.3.1 27627 2hi2A 158 3.28e+01 2fr2A 172 3.28e+01 b.60.1.8 133963 1v5vA 401 3.30e+01 b.44.2.1 113539 d.250.1.1 113540 2f1rA 171 3.33e+01 1c8zA 265 3.36e+01 1c8zA d.23.1.1 38375 1c9uA 454 3.37e+01 1c9uA b.68.2.1 27623 2coiA 386 3.37e+01 1pieA 419 3.44e+01 d.14.1.5 94706 d.58.26.7 94707 2eenA 183 3.51e+01 3bjuA 521 3.55e+01 1j6qA 136 3.58e+01 b.40.9.1 77091 1fjgL 135 3.58e+01 1fjfL b.40.4.5 25346 1yqzA 438 3.59e+01 1s55A 156 3.64e+01 b.22.1.1 118865 1e5pA 151 3.65e+01 1bj7 b.60.1.1 59272 1bpv 112 3.68e+01 1bpv 1sznA 417 3.68e+01 b.71.1.1 106162 c.1.8.1 106163 1noyA 388 3.71e+01 1clqA c.55.3.5 33713 1qa7A 217 3.72e+01 1havA b.47.1.4 26425 1xtlA 175 3.73e+01 1kb0A 677 3.73e+01 a.3.1.6 68378 b.70.1.1 68379 1dg6A 191 3.78e+01 1d4vB b.22.1.1 23883 2oq8A 160 3.81e+01 1aznA 128 3.82e+01 1nwpA b.6.1.1 23003 1lktA 104 3.83e+01 1lktA b.90.1.1 28398 1hw5A 210 3.84e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1qg0A 308 3.85e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1yiqA 689 3.85e+01 2q9vA 90 3.86e+01 1n9bA 265 3.87e+01 e.3.1.1 85463 2inwA 133 3.88e+01 d.110.8.1 137533 1pkp 150 3.96e+01 1pkp 1qfjA 232 3.96e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1hr6B 443 3.97e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1wit 93 4.00e+01 1wit