# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1ezm 301 3.36e-01 1hyt d.92.1.2 58980 1qgwC 177 3.89e-01 1qgwC a.1.1.3 15673 1kwkA 645 8.87e-01 1g24A 211 1.20e+00 1g24A d.166.1.1 42270 1qkmA 255 1.60e+00 3erdA a.123.1.1 19309 1k3eA 156 1.78e+00 d.198.1.1 68103 1k2yX 463 1.90e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1hjp 203 2.12e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1qlpA 394 2.23e+00 1ovaA e.1.1.1 42628 1b4uA 139 2.47e+00 1bouA a.88.1.1 18523 1ryt 190 2.55e+00 1ryt a.25.1.1 16646 g.41.5.1 45245 1hbq 183 2.63e+00 1aqb b.60.1.1 27078 1dvbA 191 2.64e+00 1ryt a.25.1.1 16645 g.41.5.1 45244 1hbp 183 2.83e+00 1aqb b.60.1.1 27079 1jyoA 130 3.01e+00 d.198.1.1 67483 1b71A 191 3.07e+00 1ryt a.25.1.1 16647 g.41.5.1 45246 1f44A 324 3.14e+00 a.60.9.1 64982 d.163.1.1 64983 1aqb 183 3.28e+00 1aqb b.60.1.1 27084 1jp3A 253 3.35e+00 1f75A c.101.1.1 63221 1bouA 139 3.48e+00 1bouA a.88.1.1 18521 1crxA 322 3.52e+00 4crxA a.60.9.1 18097 d.163.1.1 42157 1kbuA 349 3.55e+00 1dt6A 473 3.74e+00 1dt6A a.104.1.1 18977 3crxA 343 3.77e+00 4crxA a.60.9.1 18101 d.163.1.1 42161 4crxA 322 3.80e+00 4crxA a.60.9.1 18095 d.163.1.1 42155 1lx7A 253 4.10e+00 1cuk 203 4.59e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1bw9A 356 4.60e+00 1bw9A c.2.1.7 30274 c.58.1.1 33922 1hm6A 346 4.75e+00 1avc a.65.1.1 18147 1pyaB 228 4.81e+00 1pyaB 1j77A 209 5.12e+00 1j77A a.132.1.2 62674 1io2A 213 5.34e+00 1ekeA c.55.3.1 62612 1fntc 245 5.51e+00 1kq4A 232 5.84e+00 d.207.1.1 68791 1ig0A 319 6.02e+00 1ig0A b.82.6.1 62354 c.100.1.1 62355 1cnt2 187 6.35e+00 1cnt3 1hv8A 367 6.41e+00 1hv8A c.37.1.13 32405 c.37.1.13 32406 1pydA 556 6.47e+00 1zpdA c.31.1.3 31735 c.36.1.1 31773 c.36.1.1 31774 1pvdA 537 6.49e+00 1zpdA c.31.1.3 31737 c.36.1.1 31777 c.36.1.1 31778 1khvA 516 6.50e+00 e.8.1.4 68627 1qpbA 563 7.06e+00 1zpdA c.31.1.3 31739 c.36.1.1 31781 c.36.1.1 31782 3cla 213 7.19e+00 3cla c.43.1.1 32610 1c1dA 355 7.33e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 9apiA 347 8.11e+00 1ovaA e.1.1.1 42630 1exnA 290 8.15e+00 1exnA a.60.7.1 18088 c.53.1.2 33358 1aq0A 306 8.46e+00 1aq0A c.1.8.3 28842 1l2iA 261 8.55e+00 1ppa 121 8.69e+00 1poa a.133.1.2 19550 1cxqA 162 8.76e+00 1cxqA c.55.3.2 33621 1jx4A 352 8.87e+00 e.8.1.5 67405 1ghr 306 9.22e+00 1aq0A c.1.8.3 28844 1tfe 145 9.23e+00 1tfe d.43.1.1 38680 1jmsA 381 9.36e+00 a.60.6.1 66889 e.9.1.1 66890 1k3fA 253 9.74e+00 c.56.2.1 68105 1bed 181 1.04e+01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1hg2A 289 1.20e+01 1hg5A a.118.10.1 61024 1jf0A 195 1.24e+01 1ej3A a.39.1.5 62926 1rpl 251 1.34e+01 1bpyA e.9.1.1 43212 1aba 87 1.34e+01 1aba c.47.1.1 32760 1dkgD 383 1.34e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1ft1A 377 1.35e+01 1ft1A a.118.6.1 19186 1jcrA 377 1.37e+01 a.118.6.1 66506 1asu 162 1.39e+01 1cxqA c.55.3.2 33626 1ej3A 191 1.39e+01 1ej3A a.39.1.5 17259 1ayyA 151 1.42e+01 1apyA d.153.1.5 42016 1kvoA 124 1.44e+01 1poa a.133.1.2 19564 2pfkA 320 1.48e+01 3pfk c.89.1.1 35577 1nmtA 392 1.53e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1efuB 282 1.58e+01 1efuB a.5.2.2 58975 d.43.1.1 58976 d.43.1.1 38677 1d8dA 377 1.59e+01 1ft1A a.118.6.1 19185 1pfkA 320 1.62e+01 3pfk c.89.1.1 35575 1cn4C 166 1.62e+01 1eerA a.26.1.2 16847 1eu8A 409 1.66e+01 1eu8A c.94.1.1 59502 1atzB 189 1.68e+01 1atzA c.62.1.1 34133 1cec 343 1.68e+01 1ceo c.1.8.3 28809 1ceo 343 1.69e+01 1ceo c.1.8.3 28808 1fi4A 416 1.78e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 3ertA 261 1.80e+01 3erdA a.123.1.1 19292 1yuiA 54 1.82e+01 1yuiA g.37.1.1 45073 1ekeA 230 1.86e+01 1ekeA c.55.3.1 33572 1exnB 290 1.88e+01 1exnA a.60.7.1 18089 c.53.1.2 33359 1cpcL 172 1.88e+01 1qgwC a.1.1.3 15646 1rbp 182 1.88e+01 1aqb b.60.1.1 27085 1f47B 144 1.92e+01 1f46A d.129.4.1 59645 1fe8A 196 1.92e+01 1atzA c.62.1.1 59783 1lox 662 1.93e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1a8y 367 1.94e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1phnB 172 1.95e+01 1qgwC a.1.1.3 15642 1bpb 248 1.95e+01 1bpyA e.9.1.1 43215 1ktpB 172 1.96e+01 1f46A 140 2.03e+01 1f46A d.129.4.1 59643 1vsd 152 2.11e+01 1cxqA c.55.3.2 33625 1cb6A 691 2.13e+01 1cb6A c.94.1.2 35840 c.94.1.2 35841 1jfzA 154 2.14e+01 a.149.1.1 66655 1efnB 152 2.14e+01 1efnB d.102.1.1 40699 1p35A 299 2.23e+01 1p35A b.28.1.1 23925 1dd5A 185 2.28e+01 1dd5A d.67.3.1 39564 2abk 211 2.29e+01 2abk a.96.1.1 18743 1lucB 324 2.30e+01 1lucA c.1.16.1 29548 1bmfG 272 2.31e+01 1e1qG c.49.2.1 33160 1bif 469 2.33e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1qlaC 256 2.40e+01 1qlaC f.2.1.9 43722 1atzA 189 2.42e+01 1atzA c.62.1.1 34132 3bifA 468 2.46e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1l5jA 865 2.50e+01 1dofA 403 2.56e+01 1c3cA a.127.1.1 19429 19hcA 292 2.62e+01 19hcA a.138.1.1 19668 1ihfA 99 2.65e+01 1huuA a.55.1.1 17893 4xiaA 393 2.66e+01 4xis c.1.15.3 29439 1f7wA 144 2.75e+01 1f46A d.129.4.1 59679 1jm6A 407 2.82e+01 a.29.5.1 66876 d.122.1.4 66877 1im8A 244 2.88e+01 c.66.1.14 66212 1hy0A 466 2.91e+01 1auwA a.127.1.1 61392 1mc2A 122 2.91e+01 1qo0D 196 2.92e+01 1qo0D c.23.1.3 31125 3erdA 261 2.93e+01 3erdA a.123.1.1 19293 1cpcB 172 3.07e+01 1qgwC a.1.1.3 15644 1gaxA 862 3.07e+01 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1axj 122 3.08e+01 1axj b.45.1.1 25749 1whsA 255 3.08e+01 1ivyA c.69.1.5 34649 1hqvA 191 3.09e+01 1hqvA a.39.1.8 61160 1bg2 325 3.15e+01 1bg2 c.37.1.9 32189 1hf8A 289 3.16e+01 1hg5A a.118.10.1 19219 1prgA 270 3.25e+01 2prgA a.123.1.1 19314 1cgo 127 3.27e+01 1cpq a.24.3.2 16550 1aokB 122 3.27e+01 1poa a.133.1.2 19561 1bcsA 263 3.30e+01 1ivyA c.69.1.5 34647 1jcqA 382 3.32e+01 a.118.6.1 66504 1jdiA 231 3.32e+01 c.74.1.1 66551 1jr8A 117 3.33e+01 a.24.15.1 67115 1whtA 256 3.38e+01 1ivyA c.69.1.5 34646 1ld8A 382 3.39e+01 1e85A 127 3.54e+01 1bbhA a.24.3.2 16549 1h99A 224 3.58e+01 a.142.1.1 60814 a.142.1.1 60815 1i3dA 146 3.59e+01 a.1.1.2 61587 1i4uA 181 3.62e+01 b.60.1.1 61732 1cwyA 500 3.64e+01 1cwyA c.1.8.1 28789 1h91A 180 3.64e+01 b.60.1.1 60805 1k8eA 345 3.83e+01 1eswA 500 3.92e+01 1cwyA c.1.8.1 59500 1lliA 92 3.99e+01 1lmb3 a.35.1.2 17025