# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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.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 2ae0X 345 1.04e-01 2gaeA 346 1.75e-01 1itcA 516 4.64e-01 b.3.1.1,c.1.8.1 83705,83706 1vemA 516 1.15e+00 1i0lA 221 1.16e+00 c.61.1.1 71096 1jpc 109 1.54e+00 1b2pA b.78.1.1 27986 1sq9A 397 1.84e+00 b.69.4.1 105889 1cqyA 99 1.89e+00 1b9zA b.3.1.1 22527 1wucA 250 2.01e+00 2c3mA 1231 2.04e+00 1b0pA 1231 2.10e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1kekA 1231 2.20e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1v04A 355 3.21e+00 b.68.6.2 100240 1rhfA 182 3.67e+00 b.1.1.1,b.1.1.4 97469,97470 2pth 193 5.59e+00 2pth c.56.3.1 33793 1tc6A 236 6.31e+00 d.122.1.1 106756 1qy5A 269 6.33e+00 d.122.1.1 96573 2ghsA 326 6.86e+00 1uq5A 263 7.10e+00 d.165.1.1 99778 1n67A 359 7.17e+00 b.2.3.4,b.2.3.4 85354,85355 1vjhA 122 7.25e+00 d.129.3.1 100811 1ja1A 622 7.39e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1dywA 173 8.20e+00 2cpl b.62.1.1 27505 2a74A 643 8.53e+00 1l2tA 235 8.55e+00 c.37.1.12 73514 1tc1A 220 9.23e+00 1tc1A c.61.1.1 34083 1h9sA 140 9.92e+00 1b9mA b.40.6.2,b.40.6.2 60843,60844 1bmv1 198 1.01e+01 1bmv1 2c1cA 312 1.03e+01 1v1qA 134 1.05e+01 1e7uA 961 1.06e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1rypJ 204 1.08e+01 d.153.1.4 41878 1b9mA 265 1.09e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1ift 263 1.11e+01 1mrj d.165.1.1 42211 1e6oL 212 1.13e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1y0bA 197 1.14e+01 1wi1A 126 1.23e+01 1a34A 159 1.34e+01 1a34A b.121.7.1 23286 1e8yA 966 1.36e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1v0jA 399 1.40e+01 1m98A 317 1.45e+01 a.175.1.1,d.17.4.6 78866,78867 2gw6A 123 1.47e+01 1q6oA 216 1.50e+01 c.1.2.3 95986 2fdbM 164 1.50e+01 1at3A 247 1.51e+01 1at3A b.57.1.1 27021 1uheA 97 1.52e+01 1wmhB 86 1.53e+01 1g2rA 100 1.57e+01 1g2rA d.192.1.1 60231 1kv8A 216 1.64e+01 c.1.2.3 73054 1kmvA 186 1.67e+01 c.71.1.1 72757 1vkdA 338 1.70e+01 b.67.2.4 108644 1miuA 738 1.71e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1hgxA 183 1.74e+01 1tc1A c.61.1.1 34027 2asfA 137 1.86e+01 1sqrA 95 1.88e+01 1gvhA 396 1.88e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1ryp2 233 1.91e+01 1ryp2 1sgjA 284 1.93e+01 c.1.12.5 105535 1gw0A 559 2.02e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1vdmA 153 2.08e+01 1yqzA 438 2.10e+01 1s5uA 138 2.53e+01 d.38.1.1 98573 1m2tA 254 2.55e+01 d.165.1.1 84761 1yemA 179 2.67e+01 1tqyB 415 2.68e+01 c.95.1.1,c.95.1.1 107247,107248 1zd0A 150 2.69e+01 2g5dA 422 2.71e+01 1wguA 136 2.74e+01 1ro7A 259 2.77e+01 c.130.1.1 97667 1b0uA 262 2.89e+01 1b0uA c.37.1.12 32370 2a50B 168 2.90e+01 1vqvA 306 2.91e+01 1ppfE 218 3.12e+01 1a7s b.47.1.2 26234 1wocA 103 3.15e+01 1azo 232 3.15e+01 1azo c.52.1.14 33329 2aorA 223 3.15e+01 1ton 235 3.18e+01 5ptp b.47.1.2 26307 2cpl 165 3.29e+01 2cpl b.62.1.1 27420 1d2fA 390 3.34e+01 1d2fA c.67.1.3 34411 1g291 372 3.38e+01 1g291 1ryp1 222 3.38e+01 1ryp1 1y6hA 177 3.44e+01 1cz4A 185 3.44e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1mrg 263 3.49e+01 1mrj d.165.1.1 42183 1sz6A 249 3.51e+01 3gcb 470 3.56e+01 3gcb d.3.1.1 37032 1qauA 112 3.60e+01 1qauA b.36.1.1 24779 1cjbA 231 3.61e+01 1qk3A c.61.1.1 34079 1wwrA 171 3.69e+01 1tx4B 178 3.72e+01 1ctqA c.37.1.8 32045 1zsyA 357 3.77e+01 1g0uL 241 3.91e+01 d.153.1.4 41894 1q5fA 156 3.93e+01 d.24.1.1 104536 1o97D 320 4.11e+01 c.26.2.3,c.31.1.2 81233,81234 1jayA 212 4.15e+01 c.2.1.6 66478 1nulA 152 4.18e+01 1nulA c.61.1.1 34011 1ahsA 126 4.23e+01 1ahsA b.19.1.1 23794 1vd2A 89 4.32e+01 d.15.2.2 108517 1bmdA 327 4.34e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1y7tA 327 4.34e+01 1rocA 155 4.34e+01 b.1.22.1 97673 1jx4A 352 4.34e+01 d.240.1.1,e.8.1.7 90378,90379 1qgdA 662 4.35e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1bdmA 327 4.36e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1ok8A 394 4.41e+01 b.1.18.4,f.10.1.1 93236,93237 8dfr 189 4.43e+01 1aoeA c.71.1.1 34895 1guqA 348 4.47e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 2shpA 525 4.50e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1o54A 277 4.53e+01 c.66.1.13 92482 1yueA 427 4.67e+01 1h8uA 117 4.70e+01 1h8uA d.169.1.1 60793 1wmhA 89 4.71e+01 1z5hA 780 4.73e+01 1l6oA 95 4.84e+01 b.36.1.1 84534 1zboA 210 4.89e+01 1gwmA 153 4.98e+01 b.18.1.19 83348 1xpkC 388 5.05e+01 1xpmA 396 5.07e+01 1yndA 165 5.13e+01 1dyoA 160 5.15e+01 1dyoA b.18.1.7 23771 1ct9A 553 5.16e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1vhh 162 5.25e+01 1vhh d.65.1.2 39550 1xocA 520 5.25e+01 1x0hA 112 5.30e+01 1l2mA 118 5.30e+01 d.89.1.4 77657 1qjvA 342 5.32e+01 1qjvA b.80.1.5 28035 1p35A 299 5.40e+01 1p35A b.28.1.1 23925 1aw8B 91 5.47e+01 1aw8B 1c4xA 285 5.56e+01 1c4xA c.69.1.10 34684 1pgl1 185 5.60e+01 1g0sA 209 5.64e+01 1g0sA d.113.1.1 60187 1who 96 5.64e+01 1who b.7.3.1 23215 1tvzA 388 5.75e+01 c.95.1.2,c.95.1.2 107367,107368 1rypL 212 5.76e+01 d.153.1.4 41880 1pda 315 5.79e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1xm8A 254 5.80e+01 1xbrA 184 5.83e+01 1xbrA b.2.5.4 22458 3cox 507 5.88e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1wdeA 294 5.93e+01 1ef1A 294 6.00e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1wit 93 6.06e+01 1wit b.1.1.4 21714 2fg9A 178 6.09e+01 1lf6A 684 6.14e+01 a.102.1.5,b.30.5.5 77918,77919 1j48A 110 6.20e+01 b.1.7.1 84112 1efyA 350 6.21e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1pk6C 129 6.30e+01 b.22.1.1 94803 1a8d 452 6.31e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1n9pA 207 6.36e+01 b.1.18.16 80343 2ew2A 316 6.39e+01 1q3lA 69 6.41e+01 1t0yA 122 6.43e+01 d.15.1.1 99066 1lyqA 104 6.47e+01 b.1.18.17 78302 1w3uA 362 6.61e+01 1efdN 266 6.68e+01 1efdN c.92.2.1 35597 1pwhA 327 6.74e+01 c.79.1.1 95224 1jofA 365 6.80e+01 b.69.10.1 71775 1txkA 498 6.84e+01 b.1.18.2,b.30.5.9 107425,107426 1ckmA 330 6.94e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1txyA 104 7.01e+01 1y2tA 142 7.04e+01 1qw2A 102 7.06e+01 d.249.1.1 96456 1ti6B 274 7.07e+01 b.3.5.1,d.58.1.5 106976,106977 1el6A 219 7.18e+01 1el6B d.182.1.1 42606 1g8aA 227 7.23e+01 c.66.1.3 90506 1x3mA 415 7.28e+01 2afwA 329 7.45e+01 2b4aA 138 7.49e+01 1sglA 209 7.54e+01 d.124.1.1 105536 2booA 247 7.56e+01 1ihjA 98 7.65e+01 1pdr b.36.1.1 62382 2dpmA 284 7.68e+01 2dpmA c.66.1.28 34246 2cfeA 162 7.68e+01 1i4uA 181 7.71e+01 b.60.1.1 61732 1o7qA 289 7.76e+01 c.68.1.9 92626 1g7jB 116 7.80e+01 1f3rB b.1.1.1 19933 1b2pA 119 7.87e+01 1b2pA b.78.1.1 27998 1gx4A 289 7.89e+01 c.68.1.9 83362 1xcbA 211 8.04e+01 a.4.5.38,c.2.1.12 109552,109553 1vpjA 192 8.04e+01 1vc3B 97 8.12e+01 1xzzA 246 8.13e+01 1kzfA 230 8.21e+01 d.108.1.3 73354 2bbkH 355 8.22e+01 2bbkH b.69.2.1 27634 1vdnA 162 8.30e+01 1txlA 215 8.31e+01 b.60.1.4 107429 1sr4C 166 8.34e+01 b.42.2.1 105950 1h3gA 601 8.44e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1g79A 218 8.47e+01 1ci0A b.45.1.1 25752 2auhB 59 8.54e+01 2ac5A 316 8.57e+01 1w6sA 599 8.65e+01 1fqtA 112 8.74e+01 1fqtA b.33.1.1 24441 1fyeA 229 8.78e+01 1fyeA c.23.16.4 31477 1mlbA 214 8.80e+01 8fabA b.1.1.1,b.1.1.2 20050,21092