# 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.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 2bcoA 350 4.51e-32 1yw4A 341 1.49e-29 1h8lA 380 6.05e-06 b.3.2.1,c.56.5.1 65737,65738 1qmuA 380 6.82e-06 1qmuA b.3.2.1,c.56.5.1 22534,33827 1jqgA 433 4.09e-02 c.56.5.1,d.58.3.1 71791,71792 1xovA 326 1.18e-01 2c1cA 312 2.98e-01 2bo9A 308 3.13e-01 1pkm 530 5.70e-01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1yme 309 6.38e-01 1aye c.56.5.1 33804 1jv1A 505 6.91e-01 c.68.1.5 71892 1bavA 309 7.03e-01 1aye c.56.5.1 33806 1dtdA 303 7.85e-01 1aye c.56.5.1 33823 1m4lA 307 7.90e-01 c.56.5.1 78604 2ctb 307 8.00e-01 1aye c.56.5.1 33803 1aye 401 8.17e-01 1aye c.56.5.1,d.58.3.1 33824,39065 2ctc 307 8.73e-01 1aye c.56.5.1 33802 6cpa 307 1.52e+00 1aye c.56.5.1 33816 1vm8A 534 1.54e+00 1o0wA 252 1.59e+00 a.149.1.1,d.50.1.1 80751,80752 1hh2P 344 1.63e+00 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1pkn 530 2.05e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1z5rA 306 3.12e+00 1eqcA 394 3.38e+00 1cz1A c.1.8.3 28811 1d0nA 729 3.41e+00 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1cz1A 394 3.52e+00 1cz1A c.1.8.3 28839 1kwmA 402 3.87e+00 c.56.5.1,d.58.3.1 73079,73080 1yqfA 203 4.58e+00 2g50A 530 4.78e+00 1qm4A 396 4.87e+00 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41350,41351,41352 1jwqA 179 5.30e+00 c.56.5.6 90921 1z9hA 290 6.30e+00 1lqtA 456 6.58e+00 c.3.1.1,c.4.1.1 74198,74199 1fp3A 402 8.23e+00 1fp3A a.102.1.3 18842 2f9cA 334 8.33e+00 1om1A 332 8.99e+00 d.144.1.7 93347 1lp4A 332 9.04e+00 d.144.1.7 74170 1m2rA 327 9.34e+00 d.144.1.7 84760 1xwiA 322 9.68e+00 1bl3A 160 1.00e+01 1b9dA c.55.3.2 33655 1qyaA 307 1.05e+01 d.21.1.2,d.21.1.2 104653,104654 1csp 67 1.06e+01 1mjc b.40.4.5 25321 1eonA 245 1.08e+01 1rvaA c.52.1.2 33238 1gdhA 320 1.15e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1x7vA 99 1.21e+01 d.58.4.11 109501 1sx5A 244 1.22e+01 c.52.1.2 99023 1jvbA 347 1.26e+01 b.35.1.2,c.2.1.1 77181,77182 1b97A 244 1.28e+01 1rvaA c.52.1.2 33252 2b25A 336 1.29e+01 1lpuA 332 1.31e+01 d.144.1.7 74177 1b94A 244 1.33e+01 1rvaA c.52.1.2 33250 1rvaA 244 1.33e+01 1rvaA c.52.1.2 33240 1w9hA 427 1.35e+01 1s0uA 408 1.40e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1a6o 332 1.40e+01 1a6o 1a49A 530 1.45e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1d5yA 292 1.62e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 3hmgA 328 1.74e+01 1hgeA b.19.1.2 23825 1uyjA 296 1.79e+01 f.8.1.2 108143 1sdjA 310 1.88e+01 d.21.1.2,d.21.1.2 98807,98808 1khoA 370 1.89e+01 a.124.1.1,b.12.1.3 72489,72490 1yt8A 539 2.11e+01 1h4pA 408 2.37e+01 c.1.8.3 90617 1dp4A 435 2.44e+01 1dp4A c.93.1.1 35710 1c9oA 66 2.47e+01 1mjc b.40.4.5 25325 1lam 484 2.49e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1gsoA 431 2.51e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1lap 488 2.55e+01 1lam c.50.1.1,c.56.5.3 33171,33834 1ytvA 366 2.55e+01 1h7eA 245 2.69e+01 c.68.1.13 60717 1jsmA 325 2.75e+01 b.19.1.2 63264 1v10A 521 2.79e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1bllE 488 2.79e+01 1lam c.50.1.1,c.56.5.3 33170,33833 2occB 227 2.79e+01 2occB b.6.1.2,f.17.2.1 23027,43519 1b96A 244 2.83e+01 1rvaA c.52.1.2 33268 1t2wA 145 2.88e+01 b.100.1.1 106289 1yp5A 58 2.91e+01 1hlcA 129 3.10e+01 1c1lA b.29.1.3 24208 1g5rA 196 3.15e+01 1g5rA c.37.1.11 32367 1g5tA 196 3.15e+01 1g5rA c.37.1.11 32366 1hyvA 166 3.20e+01 1b9dA c.55.3.2 61424 1wyuB 474 3.23e+01 1laxA 370 3.24e+01 c.94.1.1 84576 1ezoA 370 3.25e+01 4mbp c.94.1.1 59539 1jh2A 99 3.27e+01 1a16 440 3.39e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1hgeA 328 3.43e+01 1hgeA b.19.1.2 23816 1v54B 227 3.47e+01 b.6.1.2,f.17.2.1 100322,100323 1d3uA 181 3.53e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1hm9A 468 3.63e+01 b.81.1.4,c.68.1.5 65866,65867 1ruwA 69 3.71e+01 1aisA 182 3.76e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1mh3A 421 3.76e+01 a.4.1.1,c.94.1.1 79112,79113 1roaA 122 3.80e+01 d.17.1.2 105024 2aqjA 538 3.84e+01 1u02A 239 4.04e+01 c.108.1.15 107538 1z1zA 131 4.04e+01 2bwvA 440 4.04e+01 1wl9A 440 4.07e+01 1anf 370 4.08e+01 4mbp c.94.1.1 35776 1jobA 162 4.10e+01 1f35A b.94.1.1 63207 1uanA 227 4.12e+01 c.134.1.1 99135 1ummA 172 4.19e+01 a.3.1.1 107958 2aujD 309 4.29e+01 1f7wA 144 4.29e+01 1f46A d.129.4.1 59679 1onxA 390 4.35e+01 b.92.1.7,c.1.9.13 87176,87177 2fokA 579 4.37e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 2govA 195 4.41e+01 1yloA 348 4.45e+01 2viuA 328 4.45e+01 1hgeA b.19.1.2 23797 2bk7B 222 4.53e+01 2bo9B 222 4.53e+01 1hxmD 242 4.55e+01 b.1.1.1,b.1.1.2 61373,61374 1g97A 459 4.61e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1wapA 75 4.63e+01 1wapA b.82.5.1 28153 1b9dA 163 4.65e+01 1b9dA c.55.3.2 33649 1ycsB 239 4.75e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1az9 457 4.82e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 2gkpA 167 4.84e+01 1j7nB 776 4.84e+01 d.92.1.14,d.92.1.14,d.166.1.1 66412,66413,66414 1tlfA 301 4.85e+01 1tlfA c.93.1.1 35687 1zo0A 126 4.99e+01 1g01A 364 5.06e+01 7a3hA c.1.8.3 60161 2ac5A 316 5.07e+01 1yj7A 171 5.11e+01 1hjzA 192 5.24e+01 c.50.1.2 83520 1d2eA 397 5.25e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1ekrA 161 5.30e+01 1ekrA d.58.21.1 39380 1gpr 162 5.39e+01 1gpr b.84.3.1 28267 1ynmA 247 5.44e+01 1vhuA 211 5.50e+01 c.50.1.2 100703 1kczA 413 5.54e+01 c.1.11.2,d.54.1.1 68451,68452 1s5lH 66 5.63e+01 1f35A 162 5.72e+01 1f35A b.94.1.1 59628 1f47B 144 5.73e+01 1f46A d.129.4.1 59645 1x47A 98 5.79e+01 1ib8A 164 5.79e+01 b.38.2.1,d.52.4.1 71168,71169 2rveA 244 5.80e+01 1rvaA c.52.1.2 33283 1gu7A 364 5.81e+01 b.35.1.2,c.2.1.1 83321,83322 1gqeA 365 5.82e+01 e.38.1.1 70351 2c8sA 172 5.87e+01 1ub4A 110 5.92e+01 b.34.6.2 88399 1j7nA 776 5.92e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1zbxB 141 5.98e+01 2a5hA 416 6.05e+01 1omp 370 6.11e+01 4mbp c.94.1.1 35778 1g0cA 364 6.21e+01 7a3hA c.1.8.3 60165 2axtH 66 6.21e+01 1ki9A 192 6.27e+01 c.37.1.1 84404 1x2kA 68 6.36e+01 1vajA 214 6.37e+01 1hfi 62 6.38e+01 1hfh g.18.1.1 44819 1ylxA 103 6.49e+01 1anu 138 6.59e+01 1aohA b.2.2.2 22403 1gq6A 313 6.71e+01 c.42.1.1 70341 2eueA 279 6.72e+01 1ocxA 182 6.73e+01 b.81.1.3 86814 2fmlA 273 6.80e+01 1gl4A 285 6.97e+01 d.22.1.2,g.3.11.5 65286,65287 1tm0A 350 7.00e+01 d.21.1.3 107147 1u0tA 307 7.00e+01 e.52.1.1 107567 1flzA 228 7.01e+01 3eugA c.18.1.1 31027 2fpeA 62 7.07e+01 4mbp 370 7.11e+01 4mbp c.94.1.1 35777 1yixA 265 7.14e+01 1tqjA 230 7.29e+01 c.1.2.2 107228 1iyu 79 7.41e+01 1iyu b.84.1.1 28227 1mpb 370 7.44e+01 4mbp c.94.1.1 35780 1f1sA 814 7.47e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1nuuA 252 7.83e+01 c.26.1.3 86209 1vmfA 145 7.86e+01 1d4xG 126 7.87e+01 1d0nA d.109.1.1 59109 1s68A 249 7.93e+01 d.142.2.4 98591 1mfgA 95 7.93e+01 b.36.1.1 79043 1jsdA 319 8.29e+01 b.19.1.2 63258 1njkA 156 8.33e+01 d.38.1.1 85818 1rpxA 230 8.54e+01 1rpxA c.1.2.2 28536 1bynA 128 8.70e+01 1rsy b.7.1.2 23193 1wr7A 41 8.72e+01 2hsdA 253 8.79e+01 1e6wA c.2.1.2 29866 1pg6A 243 8.81e+01 b.82.5.2 94673 1is3A 135 8.82e+01 b.29.1.3 76773 1gw5M 435 8.84e+01 b.2.7.1,d.110.4.2 70631,70632 1ni4B 341 8.86e+01 c.36.1.7,c.48.1.2 85729,85730 3eugA 229 8.92e+01 3eugA c.18.1.1 31018 1m2kA 249 8.96e+01 c.31.1.5 84754 1fokA 568 8.99e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325