# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1tljA 213 6.38e-15 1eudB 396 9.45e-01 2scuB c.23.4.1 31150 d.142.1.4 41571 1gpjA 404 1.11e+00 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1ftrA 296 1.19e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1b65A 375 2.22e+00 1b65A d.154.1.1 42020 1uwvA 433 2.28e+00 unknown_sccs -3950 unknown_sccs -8107 1oo0B 110 3.04e+00 d.58.7.1 87183 1rk8A 165 3.05e+00 d.58.7.1 -10018 1evhA 112 3.16e+00 1evhA b.55.1.4 26997 1kwgA 645 3.72e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1oaoC 729 5.59e+00 e.26.1.3 86746 1d7uA 433 5.72e+00 2dkb c.67.1.4 34439 1k8wA 327 5.72e+00 b.122.1.1 83094 unknown_sccs -10143 1agi 125 5.88e+00 7rsa d.5.1.1 37303 2oatA 439 6.99e+00 2dkb c.67.1.4 34452 1t7pA 698 7.50e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1uouA 474 7.96e+00 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1ixkA 315 8.49e+00 unknown_sccs -8099 1rypK 198 9.14e+00 d.153.1.4 41879 1kqfB 294 9.33e+00 d.58.1.5 75900 f.23.22.1 75901 1dxeA 256 9.71e+00 1dxeA c.1.12.5 29310 1s0aA 429 9.94e+00 c.67.1.4 -8201 1f46A 140 1.04e+01 1f46A d.129.4.1 59643 1rypI 222 1.04e+01 d.153.1.4 41877 1iyeA 309 1.13e+01 e.17.1.1 83786 1jjtA 228 1.16e+01 1a7tA d.157.1.1 63139 1g57A 217 1.18e+01 1g57A d.115.1.2 60253 1qj5A 429 1.19e+01 1dtyA c.67.1.4 34493 1knwA 425 1.20e+01 b.49.2.3 -4274 c.1.6.1 -5229 1fc4A 401 1.20e+01 1bs0A c.67.1.4 59760 1oatA 439 1.22e+01 2dkb c.67.1.4 34461 1oa4A 222 1.25e+01 b.29.1.11 86731 1srqA 341 1.29e+01 1i1kA 309 1.40e+01 1daaA e.17.1.1 61533 1is1A 185 1.48e+01 d.67.3.1 83704 1lba 146 1.48e+01 1lba d.118.1.1 41062 1st0A 337 1.56e+01 unknown_sccs -9014 unknown_sccs -9474 1qvbA 481 1.60e+01 1qvbA c.1.8.4 28983 1qwdA 177 1.64e+01 b.60.1.1 -4455 1q8iA 783 1.69e+01 c.55.3.5 -7635 e.8.1.1 -11885 1rypC 244 1.73e+01 1rypC d.153.1.4 41934 1ek8A 185 1.78e+01 1ek8A d.67.3.1 59444 2nlrA 234 1.80e+01 2nlrA b.29.1.11 24344 1lylA 504 1.85e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 2dkb 433 1.85e+01 2dkb c.67.1.4 34438 1pmmA 466 1.88e+01 c.67.1.6 -8159 1a02N 301 1.98e+01 1a02N b.1.18.1 21923 b.2.5.3 22440 1vybA 238 2.06e+01 1t62A 166 2.10e+01 1w1kA 560 2.12e+01 1ad2 228 2.14e+01 1ad2 e.24.1.1 43353 1f7uA 607 2.17e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1e6iA 121 2.20e+01 1b91A a.29.2.1 16969 1a6q 382 2.20e+01 1a6q a.159.1.1 75801 d.219.1.1 75802 1fxlA 167 2.20e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1e8gA 560 2.22e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1uu1A 335 2.26e+01 c.67.1.1 -8146 1eqfA 280 2.27e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1m4lA 307 2.29e+01 c.56.5.1 78604 1riqA 465 2.35e+01 unknown_sccs -1295 d.104.1.1 -10769 1pyfA 312 2.39e+01 c.1.7.1 -5251 1bdmA 327 2.44e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1in0A 163 2.46e+01 d.58.49.1 83694 d.58.49.1 83695 1sqgA 429 2.51e+01 1n9eA 787 2.52e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1ln1A 214 2.53e+01 d.129.3.2 74038 1ekfA 365 2.60e+01 1ekfA e.17.1.1 59445 1usuA 260 2.61e+01 unknown_sccs -9045 1f3vA 179 2.63e+01 1f3vA d.58.22.1 39382 1pyaB 228 2.66e+01 1pyaB 1ez0A 510 2.70e+01 1eyyA c.82.1.1 35385 1a4yB 123 2.71e+01 7rsa d.5.1.1 37296 3erk 364 2.72e+01 1hcl d.144.1.7 41654 2tpsA 227 2.72e+01 2tpsA c.1.3.1 28591 1mzbA 136 2.73e+01 unknown_sccs -266 1owxA 121 2.76e+01 d.58.7.1 87494 1o63A 219 2.84e+01 c.94.1.1 -8691 1f08A 148 2.87e+01 1f08A d.89.1.2 59564 1lnwA 147 2.91e+01 a.4.5.28 78104 1eyqA 222 2.92e+01 1eypA d.36.1.1 38534 1rxyA 253 3.07e+01 c.56.2.1 -7834 1bjaA 95 3.13e+01 1bjaA a.4.5.9 16122 1p7hL 286 3.15e+01 b.1.18.1 -2700 b.2.5.3 -2894 2viuA 328 3.16e+01 1hgeA b.19.1.2 23797 1ffyA 917 3.16e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1dceA 567 3.16e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1vkeA 133 3.17e+01 1bmdA 327 3.18e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1omiA 248 3.21e+01 a.4.5.4 87079 b.82.3.3 87080 2sak 121 3.25e+01 2sak d.15.5.1 37711 1h0bA 256 3.30e+01 b.29.1.11 83422 1qlpA 394 3.31e+01 1ovaA e.1.1.1 42628 1n5nA 180 3.32e+01 d.167.1.1 85336 1mml 265 3.35e+01 1mml e.8.1.2 43015 1evyA 366 3.35e+01 1evyA a.100.1.6 18811 c.2.1.6 30215 1ktaA 365 3.39e+01 e.17.1.1 77533 1h2kA 349 3.41e+01 b.82.2.6 76572 1ihgA 370 3.49e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1rtm1 149 3.49e+01 1rtm1 1rypA 243 3.51e+01 1pmaA d.153.1.4 41932 1qsmA 152 3.57e+01 1qsmA d.108.1.1 40808 1f0xA 571 3.61e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 2ctc 307 3.75e+01 1aye c.56.5.1 33802 1p3jA 217 3.76e+01 c.37.1.1 -6996 g.41.2.1 -12769 1a99A 344 3.81e+01 1pot c.94.1.1 35812 1s4nA 348 3.81e+01 unknown_sccs -8262 1kyfA 247 3.89e+01 b.1.10.1 73220 d.105.1.1 73221 1e4fT 419 3.89e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1nal1 297 3.92e+01 1nal3 1rdqE 350 3.98e+01 d.144.1.7 -11336 1hjxA 362 3.99e+01 c.1.8.5 83512 d.26.3.1 83513