# 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 1tdhA 364 3.87e-01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1cruA 454 1.36e+00 1c9uA b.68.2.1 27617 1pfo 500 1.81e+00 1pfo 1pfoA 500 1.81e+00 f.9.1.1 43826 2q1mA 130 1.82e+00 3b93A 133 1.91e+00 1fnhA 271 1.92e+00 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 2iwxA 214 1.93e+00 d.122.1.1 137758 2breA 219 1.94e+00 d.122.1.1 128994 2q8oA 136 2.78e+00 2rb6A 61 3.32e+00 1bnzA 64 3.51e+00 1azpA b.34.13.1 37468 1s3rA 535 3.56e+00 1dt9A 437 3.58e+00 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 2p9rA 102 4.27e+00 1d5rA 324 4.47e+00 1d5rA b.7.1.1,c.45.1.1 23181,32697 1keqA 248 4.60e+00 b.74.1.1 72387 1wcdJ 441 5.37e+00 b.121.4.9 120887 2df7A 458 5.64e+00 b.121.4.9 131449 2f2aB 483 5.82e+00 a.182.1.2,d.128.1.5 132802,132803 3cjxA 165 6.36e+00 2v72A 143 6.37e+00 1c9uA 454 7.43e+00 1c9uA b.68.2.1 27623 2fxqA 264 7.85e+00 2gu9A 113 7.90e+00 1hd5A 213 8.06e+00 2eng b.52.1.1 26896 3bb7A 321 8.30e+00 1c8cA 64 8.30e+00 1azpA b.34.13.1 59084 2f7tA 227 8.58e+00 2eng 210 8.58e+00 2eng 2engA 210 8.58e+00 b.52.1.1 26895 2dfbA 190 8.88e+00 b.29.1.11 131470 1b88A 114 9.80e+00 1tcrA b.1.1.1 20608 1bf4A 63 1.03e+01 1azpA b.34.13.1 37461 2vgdA 218 1.10e+01 2ra2A 64 1.12e+01 1fepA 724 1.23e+01 1fepA f.4.3.3 43808 2fk9A 157 1.30e+01 1xyiA 66 1.31e+01 1wpxB 220 1.32e+01 2hesX 330 1.38e+01 1qa1A 554 1.38e+01 1tyv b.80.1.6 28047 1azpA 66 1.38e+01 1azpA b.34.13.1 37467 1m3iA 471 1.42e+01 f.9.1.1 91178 1dg6A 191 1.45e+01 1d4vB b.22.1.1 23883 1lqyA 184 1.51e+01 d.167.1.1 74212 1jq4A 98 1.53e+01 d.15.4.2 67083 1bb8 71 1.55e+01 2bb8 1bb8A 71 1.55e+01 d.10.1.1 37478 2frqA 225 1.60e+01 d.3.1.1 133999 1molA 94 1.61e+01 1molA d.17.1.1 37988 2d73A 738 1.63e+01 1tlk 154 1.63e+01 1tlk 1b69A 69 1.63e+01 2bb8 d.10.1.1 37479 1lm8C 96 1.69e+01 d.42.1.1 74034 2b0vA 153 1.71e+01 d.113.1.1 127650 1fhgA 154 1.72e+01 1tlk b.1.1.4 21706 3cloA 258 1.72e+01 1bd2D 204 1.80e+01 1tcrA b.1.1.1,b.1.1.2 20622,21557 2o9uX 97 1.80e+01 d.17.1.1 138960 1pieA 419 1.84e+01 d.14.1.5,d.58.26.7 94706,94707 2oulA 241 1.87e+01 1fnyA 237 1.88e+01 1led b.29.1.1 59920 1qfjA 232 1.91e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1vpmA 169 1.91e+01 d.38.1.1 113967 2qdxA 257 1.92e+01 2fnjC 96 1.92e+01 d.42.1.1 133820 1d4vB 163 1.93e+01 1d4vB b.22.1.1 23884 2cohA 202 2.02e+01 a.4.5.4,b.82.3.2 130677,130678 2zcwA 202 2.02e+01 1h5yA 253 2.10e+01 c.1.2.1 65638 1iscA 192 2.17e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2nybA 192 2.17e+01 a.2.11.1,d.44.1.1 138804,138805 1qw9A 502 2.22e+01 b.71.1.2,c.1.8.3 96466,96467 1suuA 312 2.23e+01 b.68.10.1 99006 2gu3A 136 2.24e+01 2aieP 203 2.27e+01 2qcuA 501 2.29e+01 1d7cA 190 2.33e+01 1d7bA b.1.9.1 22309 1d7bA 186 2.33e+01 1d7bA b.1.9.1 22307 1e69B 322 2.38e+01 1e69B c.37.1.12 32377 2bghA 421 2.39e+01 1bbxC 63 2.49e+01 1azpA b.34.13.1 37465 2fp8A 322 2.51e+01 1zxzA 197 2.58e+01 3buuA 229 2.58e+01 1dkzA 219 2.63e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 2h6oA 470 2.68e+01 1nb8A 353 2.70e+01 d.3.1.9 80385 3d2lA 243 2.72e+01 1qtrA 317 2.73e+01 1qtrA c.69.1.7 34660 1m1sA 116 2.78e+01 b.1.11.2 84747 2fvgA 340 2.79e+01 b.49.3.1,c.56.5.4 134201,134202 2rcfA 91 3.00e+01 3b5lB 198 3.01e+01 1gyhA 318 3.03e+01 b.67.2.1 70757 2j2zB 173 3.03e+01 1lm6A 215 3.08e+01 d.167.1.1 84628 1zc3B 113 3.09e+01 b.55.1.1 124881 2elcA 329 3.18e+01 1et9A 204 3.31e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 3b77A 193 3.31e+01 1fm2B 520 3.34e+01 1fm2B 1l8fA 207 3.35e+01 b.52.1.1 84537 1gydB 315 3.39e+01 b.67.2.1 70751 1dkxA 219 3.42e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1h6lA 353 3.53e+01 b.68.3.1 60687 1vdmA 153 3.56e+01 c.61.1.1 119994 2he2A 102 3.56e+01 1fi8A 228 3.60e+01 5ptp b.47.1.2 26374 1pdr 99 3.60e+01 1pdr 2f4wA 187 3.68e+01 d.20.1.1 132958 1nqcA 217 3.69e+01 d.3.1.1 86024 1je3A 97 3.74e+01 d.68.3.3 71637 3cc6A 281 3.75e+01 1g6nA 210 3.84e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1b8eA 162 3.86e+01 1bebA b.60.1.1 59077 1be9A 119 3.87e+01 1pdr b.36.1.1 24774 1xd5A 112 3.91e+01 b.78.1.1 115155 2h7jA 220 3.94e+01 d.3.1.1 136216 1jmcA 246 3.97e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1bebA 162 3.98e+01 1bebA b.60.1.1 27115 2gf6A 135 4.00e+01 d.38.1.1 135077 2h36X 112 4.07e+01 2ix2B 245 4.08e+01 2dduA 387 4.09e+01 1gsoA 431 4.10e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 2q9vA 90 4.10e+01 2v5iA 559 4.11e+01 2por 301 4.17e+01 2por 2porA 301 4.17e+01 f.4.3.1 43759 2r78A 117 4.22e+01 1xe1A 116 4.28e+01 b.43.3.1 109571 2okfA 140 4.31e+01 2qt5A 200 4.37e+01 2uwiA 142 4.39e+01 2cu9A 161 4.47e+01 2vbkA 514 4.48e+01 2oklA 185 4.49e+01 1qj8A 148 4.56e+01 1qj8A f.4.1.1 43744 1nofA 383 4.59e+01 b.71.1.2,c.1.8.3 92020,92021 3bduA 62 4.62e+01 2i1b 153 4.69e+01 2i1b 1cc3A 130 4.74e+01 1nwpA b.6.1.1 23008 1q7hA 153 4.79e+01 b.122.1.1,d.17.6.2 96042,96043 2cgpA 210 4.81e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 1wm1A 317 4.87e+01 c.69.1.7 109405 2z1cA 75 4.89e+01 2dnjA 260 4.90e+01 3dni d.151.1.1 41790 1k0iA 394 4.93e+01 c.3.1.2,d.16.1.2 67942,67943 2geeA 203 4.94e+01 1ykjA 394 4.97e+01 1hw5A 210 5.00e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2covD 104 5.00e+01 1zxkA 98 5.03e+01 2a46A 238 5.09e+01 2inbA 140 5.11e+01 1nwpA 128 5.12e+01 1nwpA b.6.1.1 23011 1r17A 343 5.22e+01 b.2.3.4,b.2.3.4 96796,96797 3bjsA 428 5.39e+01 1i6xA 209 5.40e+01 a.4.5.4,b.82.3.2 83673,83674 1qqcA 773 5.45e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1i40A 175 5.48e+01 b.40.5.1 66024 1he7A 126 5.58e+01 1wwcA b.1.1.4 60970 2prdA 174 5.68e+01 b.40.5.1 25435 2vc8A 84 5.74e+01 3c2qA 345 5.78e+01 1qg0A 308 5.81e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 2jdiD 482 5.82e+01 a.69.1.1,b.49.1.1,c.37.1.11 138263,138264,138265 1fnmA 691 5.84e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 25709,32144,37546,39302,39303 1e79D 482 5.88e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1uldA 150 5.92e+01 b.29.1.3 99545 1s5pA 235 5.92e+01 c.31.1.5 98569 3cpxA 321 5.95e+01 2d5xB 146 6.01e+01 a.1.1.2 131283 2au7A 175 6.01e+01 2rb8A 104 6.06e+01 3b9eA 584 6.07e+01 2ft6A 124 6.09e+01 1tp5A 119 6.13e+01 b.36.1.1 119305 1eaqA 140 6.32e+01 b.2.5.6 76144 2ae5B 528 6.36e+01 2ftbA 125 6.43e+01 b.60.1.2 134057 1yer 228 6.46e+01 1yer 2jilA 97 6.46e+01 1sq9A 397 6.51e+01 b.69.4.1 105889 2nvhA 153 6.64e+01 b.42.1.2 138630 1l2hA 153 6.68e+01 b.42.1.2 77655 1sfp 114 6.69e+01 1sfp 1sfpA 114 6.69e+01 b.23.1.1 23895 3rp2A 224 6.69e+01 1a7s b.47.1.2 26298 1kn9A 249 6.70e+01 b.87.1.2 68699 1ughI 82 6.70e+01 1ugiA d.17.5.1 38133 3dni 260 6.77e+01 3dni 1ddwA 120 6.81e+01 1evhA b.55.1.4 27001 1pl3A 186 6.86e+01 b.1.9.1 88158 3bmzA 199 6.98e+01 1ddvA 111 6.99e+01 1evhA b.55.1.4 27002 2f68X 313 6.99e+01 2q7aA 152 7.00e+01 1xoyA 161 7.02e+01 b.18.1.26 115718 1udiI 83 7.06e+01 1ugiA d.17.5.1 38124 2re9A 181 7.08e+01 1oejA 193 7.08e+01 b.60.1.4 92798 1ugiA 84 7.09e+01 1ugiA d.17.5.1 38125 1txlA 215 7.10e+01 b.60.1.4 107429 2vbuA 136 7.10e+01 1g2rA 100 7.13e+01 1g2rA d.192.1.1 60231 2pdrA 149 7.22e+01 1f37A 110 7.27e+01 1f37A c.47.1.11 33088 1nn6A 228 7.29e+01 b.47.1.2 85893 1dar 691 7.34e+01 1dar 2pd8A 149 7.35e+01 1xe0A 114 7.36e+01 b.121.3.1 115197 1nciA 110 7.36e+01 1edhA b.1.6.1 22191 1kmoA 774 7.37e+01 f.4.3.3 72753 1n0uA 842 7.39e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1tp6A 128 7.40e+01 d.17.4.12 107184 1xvxA 312 7.42e+01 c.94.1.1 116097 2yz0A 138 7.45e+01 1m2aA 110 7.47e+01 c.47.1.11 78472 3cbnA 151 7.49e+01 1gmiA 136 7.49e+01 b.7.1.1 65309 1a8pA 258 7.52e+01 b.43.4.2,c.25.1.1 25654,31544 2apr 325 7.53e+01 2er7E 2aprA 325 7.53e+01 b.50.1.2 26819 1ospL 214 7.56e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1uylA 236 7.56e+01 d.122.1.1 108147 2v0uA 146 7.59e+01 1vcbB 112 7.62e+01 1vcbB d.42.1.1 38633 1y9qA 192 7.64e+01 a.35.1.8,b.82.1.15 116592,116593 2hq2A 354 7.70e+01 e.62.1.1 136656 2uurA 245 7.77e+01 2bm0A 691 7.83e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128748,128749,128750,128751,128752 2vovA 336 7.88e+01 2q2bA 179 7.90e+01 1lla 628 7.93e+01 1lla 1llaA 628 7.93e+01 a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1ag0A 129 7.94e+01 1nwpA b.6.1.1 23001 1vcaA 202 8.00e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685