# List of top-scoring protein chains for t2k-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 1.63e-01 2gaeA 346 1.90e-01 1itcA 516 2.67e-01 b.3.1.1,c.1.8.1 83705,83706 5bcaA 516 5.40e-01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1vemA 516 6.87e-01 1b9zA 516 6.92e-01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1cqyA 99 8.59e-01 1b9zA b.3.1.1 22527 1uheA 97 1.63e+00 1v1qA 134 2.19e+00 1grvB 182 3.36e+00 c.61.1.1 76322 1b0pA 1231 3.42e+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 1wocA 103 3.43e+00 2c3mA 1231 3.53e+00 1kekA 1231 3.63e+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 1qy5A 269 3.63e+00 d.122.1.1 96573 1tc6A 236 3.73e+00 d.122.1.1 106756 1l2tA 235 4.61e+00 c.37.1.12 73514 1sq9A 397 5.40e+00 b.69.4.1 105889 1q6oA 216 5.62e+00 c.1.2.3 95986 1v04A 355 5.70e+00 b.68.6.2 100240 2ghsA 326 6.37e+00 1kv8A 216 6.41e+00 c.1.2.3 73054 1n67A 359 6.65e+00 b.2.3.4,b.2.3.4 85354,85355 1miuA 738 7.67e+00 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 1aw8B 91 7.69e+00 1aw8B 1i0lA 221 7.73e+00 c.61.1.1 71096 1msaA 109 7.98e+00 1b2pA b.78.1.1 27987 1jpc 109 9.32e+00 1b2pA b.78.1.1 27986 1pt1A 143 9.71e+00 b.52.2.1 95084 2pth 193 1.03e+01 2pth c.56.3.1 33793 1rhfA 182 1.10e+01 b.1.1.1,b.1.1.4 97469,97470 1b0uA 262 1.12e+01 1b0uA c.37.1.12 32370 1aw8E 91 1.16e+01 1aw8B 2g5dA 422 1.20e+01 1g0sA 209 1.20e+01 1g0sA d.113.1.1 60187 1sqrA 95 1.26e+01 1bmv1 198 1.41e+01 1bmv1 1kmvA 186 1.47e+01 c.71.1.1 72757 1aly 146 1.65e+01 1aly b.22.1.1 23856 1pqhA 143 1.67e+01 b.52.2.1 95017 2c1cA 312 1.94e+01 1lepA 99 2.12e+01 1lepA b.35.1.1 24649 2fnbA 95 2.14e+01 2fnbA b.1.2.1 21979 1wi1A 126 2.16e+01 1a22B 238 2.16e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 1h9sA 140 2.21e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1h6yA 170 2.43e+01 b.18.1.7 70904 1cjbA 231 2.46e+01 1qk3A c.61.1.1 34079 3cox 507 2.56e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1y0bA 197 2.66e+01 1ahsA 126 2.72e+01 1ahsA b.19.1.1 23794 1vjhA 122 2.78e+01 d.129.3.1 100811 1vpjA 192 2.80e+01 1h0cA 392 2.82e+01 c.67.1.3 83424 1nvpD 108 2.83e+01 a.32.1.1,b.56.1.1 92213,92214 1coy 507 2.83e+01 1b8sA c.3.1.2,d.16.1.1 30333,37864 8dfr 189 2.93e+01 1aoeA c.71.1.1 34895 1n99A 166 2.98e+01 b.36.1.1,b.36.1.1 85459,85460 1a97A 148 3.01e+01 1nulA c.61.1.1 34023 1amoA 615 3.01e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1ro7A 259 3.06e+01 c.130.1.1 97667 1txyA 104 3.09e+01 1dywA 173 3.16e+01 2cpl b.62.1.1 27505 1sgjA 284 3.26e+01 c.1.12.5 105535 1d4vB 163 3.28e+01 1d4vB b.22.1.1 23884 1ja1A 622 3.28e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1viuA 203 3.33e+01 d.113.1.1 100771 1qjvA 342 3.39e+01 1qjvA b.80.1.5 28035 1rocA 155 3.42e+01 b.1.22.1 97673 1vqvA 306 3.48e+01 1b9mA 265 3.49e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 2cwzA 141 3.60e+01 1ef1A 294 3.61e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1g0u1 266 3.66e+01 1vc3B 97 3.73e+01 1gw0A 559 3.79e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1ksgB 152 4.05e+01 b.1.18.8 72913 1hxmA 229 4.19e+01 1hxmA b.1.1.1,b.1.1.2 61367,61368 1m98A 317 4.34e+01 a.175.1.1,d.17.4.6 78866,78867 1wucA 250 4.35e+01 1gpc 218 4.47e+01 1gpc b.40.4.7 25393 1lyqA 104 4.47e+01 b.1.18.17 78302 1vkdA 338 4.55e+01 b.67.2.4 108644 1ryp2 233 4.74e+01 1ryp2 1a34A 159 4.77e+01 1a34A b.121.7.1 23286 2g09A 297 4.82e+01 2eveA 157 4.90e+01 1zsyA 357 4.95e+01 1rypJ 204 4.97e+01 d.153.1.4 41878 1d7kA 421 4.98e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1gvhA 396 5.11e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1o12A 376 5.21e+01 b.92.1.5,c.1.9.10 80758,80759 1azo 232 5.24e+01 1azo c.52.1.14 33329 1w3uA 362 5.25e+01 1k3iA 656 5.46e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1g0uI 205 5.56e+01 d.153.1.4 41891 1wmhB 86 5.58e+01 1pnj 86 5.60e+01 1ckaA b.34.2.1 24487 1tqyB 415 5.70e+01 c.95.1.1,c.95.1.1 107247,107248 1be9A 119 5.72e+01 1pdr b.36.1.1 24774 1nulA 152 5.81e+01 1nulA c.61.1.1 34011 1zh5A 195 5.84e+01 1gupA 348 5.86e+01 1guqA d.13.1.2,d.13.1.2 37534,37535 1guqA 348 5.90e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1vdmA 153 5.93e+01 1o7iA 119 5.98e+01 b.40.4.3 86642 1jayA 212 6.05e+01 c.2.1.6 66478 1tc1A 220 6.09e+01 1tc1A c.61.1.1 34083 1ti6B 274 6.14e+01 b.3.5.1,d.58.1.5 106976,106977 1yemA 179 6.26e+01 1tx4B 178 6.40e+01 1ctqA c.37.1.8 32045 1hgxA 183 6.67e+01 1tc1A c.61.1.1 34027 2gw6A 123 6.69e+01 1s5uA 138 6.72e+01 d.38.1.1 98573 1jaxA 212 6.79e+01 c.2.1.6 66476 1j48A 110 6.80e+01 b.1.7.1 84112 1l6oA 95 6.89e+01 b.36.1.1 84534 2d4rA 147 6.91e+01 1eikA 77 6.93e+01 1eikA d.78.1.1 39751 1l5cA 92 6.94e+01 b.9.1.1 73577 1e6oL 212 7.05e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1a8d 452 7.06e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1zboA 210 7.08e+01 1nciA 110 7.26e+01 1edhA b.1.6.1 22191 2aorA 223 7.33e+01 1qgdA 662 7.35e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1dg6A 191 7.42e+01 1d4vB b.22.1.1 23883 1zd0A 150 7.42e+01 1h5zA 455 7.55e+01 a.104.1.1 90622 1cr0A 296 7.62e+01 1cr1A c.37.1.11 32287 1x8vA 455 7.68e+01 1n62B 809 7.69e+01 d.41.1.1,d.133.1.1 80092,80093 1uq5A 263 7.73e+01 d.165.1.1 99778 1a7qH 116 7.83e+01 1gc1H b.1.1.1 19955 1ea1A 455 7.91e+01 1ea1A a.104.1.1 18970 1soxA 466 7.92e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1aohB 147 8.01e+01 1aohA b.2.2.2 22402 1y2tA 142 8.02e+01 1ew4A 106 8.05e+01 1ew4A d.82.2.1 40023 1xyfA 436 8.05e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1pvl 301 8.10e+01 1pvl f.6.1.1 43819 1ixmB 192 8.36e+01 1ixmA d.123.1.1 41115 1v0jA 399 8.41e+01 1qdlA 422 8.49e+01 1qdlA d.161.1.1 42088 1gs5A 258 8.51e+01 c.73.1.2 70395 1g2qA 187 8.57e+01 c.61.1.1 65117 1at3A 247 8.58e+01 1at3A b.57.1.1 27021 1bmdA 327 8.68e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1y7tA 327 8.68e+01 1dyoA 160 8.68e+01 1dyoA b.18.1.7 23771 1ton 235 8.72e+01 5ptp b.47.1.2 26307 2fg9A 178 8.73e+01 1n1pA 504 8.76e+01 c.3.1.2,d.16.1.1 91546,91547 1n4wA 504 8.76e+01 c.3.1.2,d.16.1.1 91676,91677 1cr1A 296 8.80e+01 1cr1A c.37.1.11 32286 1vm7A 311 8.80e+01 c.72.1.1 108884 1mxtA 504 8.84e+01 c.3.1.2,d.16.1.1 79671,79672 1vclA 432 8.85e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1qj2B 809 8.87e+01 1qj2B 1br9 194 8.87e+01 1br9 b.40.3.1 25235 1grj 158 8.92e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1knlA 130 8.98e+01 b.42.2.1 72780