# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1vk1A 242 6.48e-04 d.268.1.2 108634 1xb4A 202 1.07e-01 1u5tC 202 1.63e-01 a.4.5.54,a.4.5.54 107688,107689 1yy7A 213 2.75e-01 1o6dA 163 1.10e+00 c.116.1.3 92567 1r1hA 696 1.42e+00 d.92.1.4 104756 1dmtA 696 1.89e+00 1dmtA d.92.1.4 40296 1z63A 500 1.96e+00 1u46A 291 2.07e+00 d.144.1.7 107656 1taq 832 2.08e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1qryA 80 2.14e+00 2hddA a.4.1.1 16016 1rwiA 270 2.31e+00 b.68.9.1 97987 1zs9A 261 2.47e+00 1cll 148 2.52e+00 1cll a.39.1.5 17263 1s2oA 244 2.92e+00 1wzzA 334 3.23e+00 1iwmA 186 3.34e+00 b.125.1.2 83758 1z5zA 271 3.80e+00 1t6t1 118 3.84e+00 1dgsA 667 4.67e+00 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1yzxA 226 6.11e+00 1d9tA 289 6.91e+00 1deaA 1ne7A 289 6.94e+00 c.124.1.1 91833 1fiqC 763 7.34e+00 1fiqC d.41.1.1,d.133.1.1 38588,41418 1at1A 310 7.63e+00 3csuA c.78.1.1,c.78.1.1 35168,35169 1xhnA 184 7.72e+00 8atcA 310 8.95e+00 3csuA c.78.1.1,c.78.1.1 35132,35133 1ekxA 311 9.40e+00 3csuA c.78.1.1,c.78.1.1 35088,35089 1csmA 256 1.09e+01 5csmA a.130.1.2 19495 2bnfB 241 1.15e+01 1ldm 329 1.21e+01 3ldh c.2.1.5,d.162.1.1 30160,42127 1w98B 283 1.27e+01 1q7fA 286 1.28e+01 b.68.9.1 96036 1yal 218 1.30e+01 1cs8A d.3.1.1 37025 2bneA 241 1.32e+01 3cln 148 1.35e+01 1cll a.39.1.5 17286 1iuhA 198 1.35e+01 d.61.1.2 83711 1kjvB 100 1.39e+01 b.1.1.2 77423 2f3yA 148 1.39e+01 1v58A 241 1.42e+01 c.47.1.9,d.17.3.1 108371,108372 1acmA 310 1.44e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 6ldh 330 1.46e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1amz 435 1.48e+01 1csh a.103.1.1 18884 1yviA 149 1.55e+01 1gio 125 1.56e+01 7rsa d.5.1.1 37304 2a0fA 310 1.64e+01 2byoA 207 1.67e+01 1agi 125 1.69e+01 7rsa d.5.1.1 37303 1wf3A 301 1.69e+01 1csh 435 1.79e+01 1csh a.103.1.1 18880 1cfyA 143 1.81e+01 1cof d.109.1.2 40858 1exrA 148 1.91e+01 1cll a.39.1.5 17299 1ftt 68 1.97e+01 2hddA a.4.1.1 15997 1wn0A 145 2.05e+01 1al6 437 2.05e+01 1csh a.103.1.1 18885 1y9kA 157 2.06e+01 2fmlA 273 2.09e+01 1z6aA 500 2.10e+01 1ignA 246 2.11e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1xkqA 280 2.23e+01 2fl7A 232 2.31e+01 1xnfA 275 2.32e+01 1cof 143 2.32e+01 1cof d.109.1.2 40860 1pd21 199 2.37e+01 1pd21 1osa 148 2.55e+01 1cll a.39.1.5 17300 2ygsA 92 2.70e+01 1cy5A a.77.1.3 18431 1cwwA 102 2.70e+01 1cy5A a.77.1.3 18434 1fo4A 1332 2.76e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1y88A 199 2.80e+01 1ggzA 148 2.84e+01 a.39.1.5 70176 1xvxA 312 2.84e+01 1uzbA 516 2.88e+01 c.82.1.1 100220 1qg0A 308 2.89e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1eh9A 558 2.95e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1p32A 209 2.96e+01 1p32A d.25.1.1 38379 1bmg 98 3.00e+01 1agdB b.1.1.2 20667 1gz0A 253 3.05e+01 c.116.1.1,d.79.3.3 76391,76392 1jr5A 90 3.08e+01 a.150.1.1 67113 1ngr 85 3.13e+01 1ngr a.77.1.2 18422 1pswA 348 3.19e+01 c.87.1.7 88287 1fztA 211 3.20e+01 1qhfA c.60.1.1 60158 1k1xA 659 3.30e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1y0vH 146 3.39e+01 1nnhA 294 3.51e+01 d.104.1.1 92005 2bjkA 516 3.51e+01 1rypF 233 3.60e+01 1rypF d.153.1.4 41937 2g3bA 208 3.62e+01 1d4bA 122 3.66e+01 1d4bA d.15.2.1 37638 1ckeA 227 3.71e+01 1ckeA c.37.1.1 31846 1q2zA 120 3.77e+01 a.118.19.1 95656 1xyiA 66 3.79e+01 1dcpA 104 3.80e+01 1dcpA d.74.1.1 39672 1fnb 314 3.83e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1gjnA 153 3.84e+01 a.1.1.2 70191 1y01A 102 3.90e+01 1uurA 473 3.92e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1cy5A 97 3.96e+01 1cy5A a.77.1.3 18430 1zelA 298 3.97e+01 1qzzA 374 4.10e+01 a.4.5.29,c.66.1.12 96719,96720 2bf6A 449 4.13e+01 1io7A 368 4.15e+01 1f4tA a.104.1.1 18971 1i1nA 226 4.19e+01 c.66.1.7 71102 1gkmA 509 4.21e+01 a.127.1.2 70228 1s1pA 331 4.40e+01 c.1.7.1 98350 1dwtA 153 4.41e+01 1a6m a.1.1.2 15190 1w0bA 102 4.42e+01 a.7.11.1 108985 1azqA 66 4.45e+01 1azpA b.34.13.1 37469 1nz6A 101 4.46e+01 a.2.3.1 86441 2fa8A 105 4.54e+01 1ky9B 448 4.57e+01 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1rj9A 304 4.63e+01 a.24.13.1,c.37.1.10 97553,97554 1k99A 99 4.65e+01 a.21.1.1 68341 1b7gO 340 4.65e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 2frfA 153 4.66e+01 2napA 723 4.68e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1bvqA 141 4.73e+01 1bvqA d.38.1.1 38542 1xkpB 124 4.78e+01 1wxcA 281 4.82e+01 2a1fA 247 4.89e+01 1eqcA 394 4.89e+01 1cz1A c.1.8.3 28811 1cz1A 394 4.90e+01 1cz1A c.1.8.3 28839 1dchA 104 4.91e+01 1dcpA d.74.1.1 39692 1v97A 1332 4.92e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1pjr 724 5.03e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1azpA 66 5.09e+01 1azpA b.34.13.1 37467 2fxaA 207 5.11e+01 1wpoB 256 5.14e+01 1lay b.57.1.1 27013 1xfxO 149 5.14e+01 1rd5A 262 5.17e+01 1pmt 203 5.19e+01 1a0fA a.45.1.1,c.47.1.5 17740,33034 2g0wA 296 5.20e+01 1b8fA 509 5.32e+01 1b8fA a.127.1.2 19434 1fnc 314 5.37e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1o5zA 442 5.40e+01 c.59.1.2,c.72.2.2 92530,92531 1wpoA 256 5.53e+01 1lay b.57.1.1 27012 1tueA 212 5.59e+01 c.37.1.20 107323 3csuA 310 5.64e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1fnd 314 5.66e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1w36B 1180 5.68e+01 2g40A 224 5.69e+01 1nksA 194 5.69e+01 1nksA c.37.1.1 31886 1ehaA 558 5.77e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 1l5wA 796 5.78e+01 c.87.1.4 73605 1bx1A 314 5.81e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1jk8B 190 5.87e+01 1iakB b.1.1.2,d.19.1.1 63147,63148 1f93A 104 5.89e+01 1dcpA d.74.1.1 39688 2erfA 209 5.90e+01 1gqvA 135 5.90e+01 d.5.1.1 70376 1tq8A 163 5.93e+01 c.26.2.4 107204 1rx0A 393 5.95e+01 a.29.3.1,e.6.1.1 98007,98008 1p4oA 322 5.99e+01 d.144.1.7 87775 1lqbC 162 6.02e+01 b.3.3.1 74186 1orrA 347 6.03e+01 c.2.1.2 93460 1j6wA 175 6.04e+01 1j98A d.185.1.2 62663 1lo7A 141 6.06e+01 d.38.1.1 74144 1rw2A 152 6.09e+01 a.118.19.1 97961 2gfnA 209 6.20e+01 1b4pA 217 6.20e+01 a.45.1.1,c.47.1.5 83158,83159 2cohA 202 6.23e+01 1xriA 151 6.24e+01 1z8uA 102 6.25e+01 1sap 66 6.26e+01 1azpA b.34.13.1 37472 1oafA 261 6.27e+01 a.93.1.1 86734 1lbd 282 6.27e+01 1lbd a.123.1.1 19279 1fjgT 106 6.32e+01 1fjfT a.7.6.1 16338 1gnwA 211 6.37e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1ihgA 370 6.37e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1hr6A 475 6.41e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1a25A 149 6.43e+01 1rsy b.7.1.2 23197 1g0uE 234 6.45e+01 d.153.1.4 41950 1en7A 157 6.50e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 2gp5A 349 6.60e+01 1k20A 310 6.76e+01 c.107.1.1 68027 1dyoA 160 6.81e+01 1dyoA b.18.1.7 23771 1z1lA 345 6.89e+01 1h6yA 170 7.06e+01 b.18.1.7 70904 1wkqA 164 7.10e+01 c.97.1.2 109393 1bzpA 153 7.23e+01 1a6m a.1.1.2 15020 1tx4B 178 7.26e+01 1ctqA c.37.1.8 32045 1f4kA 122 7.33e+01 1bm9A a.4.5.7 59646 2b67A 204 7.36e+01 1l0wA 580 7.37e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1f02T 66 7.37e+01 1f02T j.67.1.1 46360 1emy 153 7.41e+01 1a6m a.1.1.2 15204 1ir3A 306 7.44e+01 1fmk d.144.1.7 41702 1f5mA 180 7.45e+01 1f5mB d.110.2.1 40895 1xxlA 239 7.47e+01 1csc 433 7.50e+01 1csh a.103.1.1 18886 1vl5A 260 7.54e+01 c.66.1.41 108720 2g0cA 76 7.56e+01 1ak8 76 7.58e+01 1cll a.39.1.5 17281 1psrA 100 7.59e+01 1psrA a.39.1.2 17180 1vcbC 160 7.69e+01 1vcbC b.3.3.1 22535 1lm8V 160 7.74e+01 b.3.3.1 74035 1qycA 308 7.80e+01 c.2.1.2 96581 1myf 153 7.83e+01 1a6m a.1.1.2 15147 1a6g 151 7.85e+01 1a6m a.1.1.2 15021 1ymqA 261 7.86e+01 1dcoA 104 7.92e+01 1dcpA d.74.1.1 39680 1k87A 669 7.97e+01 a.176.1.1,c.1.23.2 77286,77287 1n3yA 198 7.99e+01 c.62.1.1 79976 1fiy 883 8.09e+01 1fiy c.1.12.3 29307 1jlm 192 8.12e+01 1ido c.62.1.1 34140 1nw1A 429 8.22e+01 d.144.1.8 86286 1mbd 153 8.22e+01 1a6m a.1.1.2 15033 1jqhA 308 8.42e+01 d.144.1.7 71793 1rl2A 137 8.43e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1mai 131 8.50e+01 1mai b.55.1.1 26951 1mbmA 198 8.51e+01 b.47.1.3 78916 2genA 197 8.61e+01 1ex2A 189 8.62e+01 1ex2A c.51.4.2 33225 2b5dX 528 8.72e+01 2occE 109 8.75e+01 2occE a.118.11.1 19224 2d2eA 250 8.87e+01 1hi2A 135 8.87e+01 7rsa d.5.1.1 61057 1oznA 285 8.89e+01 c.10.2.7 87621 1r4wA 226 8.89e+01 c.47.1.13 97050 2gaeA 346 8.92e+01 1kijA 390 8.94e+01 d.14.1.3,d.122.1.2 72514,72515 1bvoA 175 8.96e+01 1a3qA b.2.5.3 22457