# 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 1nxmA 197 1.96e-01 b.82.1.1 86385 1eur 365 8.90e-01 1eut b.68.1.1 27607 1m98A 317 1.50e+00 a.175.1.1,d.17.4.6 78866,78867 1z90A 469 1.80e+00 1ojqA 212 1.87e+00 d.166.1.1 93146 1xrtA 467 2.01e+00 1fxzA 476 2.73e+00 b.82.1.2,b.82.1.2 65059,65060 1tqzA 133 2.80e+00 1w8oA 601 3.09e+00 1euu 605 3.15e+00 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1eut 605 3.43e+00 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609 1vqoW 154 3.45e+00 1khdA 345 3.57e+00 a.46.2.1,c.27.1.1 77400,77401 1wwrA 171 4.01e+00 1jj2V 154 4.06e+00 1ffkT d.59.1.1 63107 1s72W 154 4.08e+00 d.59.1.1 105342 1s72Q 96 4.30e+00 b.34.5.1 105336 1jj2P 95 4.30e+00 1ffkN b.34.5.1 63101 1wcqA 601 4.35e+00 1vqoQ 96 4.38e+00 1q8bA 105 4.66e+00 d.58.4.6 96201 1woqA 267 4.98e+00 c.55.1.10,c.55.1.10 109462,109463 1yprA 125 5.05e+00 3nul d.110.1.1 40888 2bepA 159 5.11e+00 1ri6A 343 5.15e+00 b.69.11.1 97503 1ffkN 95 5.62e+00 1ffkN b.34.5.1 24606 2gupA 292 5.82e+00 1fa8A 135 6.18e+00 1qipA d.32.1.1 38486 1zo2A 129 6.27e+00 1eysH 259 6.44e+00 6prcH b.41.1.1,f.23.10.1 25484,43517 1dq3A 454 6.44e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2awaA 390 6.63e+00 1prq 125 6.96e+00 3nul d.110.1.1 40883 1zq4A 693 7.00e+00 1o5uA 101 7.07e+00 b.82.1.8 92518 1cv8 174 7.11e+00 1cv8 d.3.1.1 37089 1f9zA 135 7.26e+00 1qipA d.32.1.1 38484 2cr9A 139 7.75e+00 1hcxA 127 8.04e+00 b.109.1.1 65800 1u2cA 246 8.11e+00 b.1.6.2,d.272.1.1 107610,107611 3nul 130 8.13e+00 3nul d.110.1.1 40891 1jf0A 195 8.39e+00 1ej3A a.39.1.5 62926 1qv1A 195 8.59e+00 a.39.1.5 96347 1el4A 195 8.75e+00 1ej3A a.39.1.5 59453 1u9aA 160 9.71e+00 1u9aA d.20.1.1 38333 2gwdA 449 9.94e+00 1a0k 131 1.01e+01 3nul d.110.1.1 40892 1df7A 159 1.02e+01 3dfr c.71.1.1 34885 1eetB 427 1.03e+01 1rthA e.8.1.2 43079 1juhA 350 1.07e+01 b.82.1.5 71884 1gvmA 136 1.09e+01 b.109.1.1 70612 1nziA 159 1.10e+01 b.23.1.1,g.3.11.1 86449,86450 2grrA 161 1.11e+01 1tq5A 242 1.11e+01 1h1iB 350 1.12e+01 b.82.1.5 76470 4enl 436 1.13e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1dmzA 158 1.13e+01 1qu5A b.26.1.2 23921 1bqnB 430 1.14e+01 1rthA e.8.1.2 43065 1h1iD 350 1.15e+01 b.82.1.5 76472 1zgkA 308 1.16e+01 1u6dX 308 1.17e+01 1gikA 261 1.17e+01 d.165.1.1 90513 1h1iC 350 1.18e+01 b.82.1.5 76471 1a3s 160 1.18e+01 1u9aA d.20.1.1 38335 1ts9A 102 1.18e+01 1c1bB 440 1.18e+01 1rthA e.8.1.2 43077 1qipA 183 1.18e+01 1qipA d.32.1.1 38470 1ffkT 154 1.24e+01 1ffkT d.59.1.1 39527 1r45A 204 1.28e+01 1llnA 262 1.30e+01 d.165.1.1 84625 2cn3A 737 1.32e+01 1ijtA 128 1.34e+01 1bfg b.42.1.1 62510 1fvuB 125 1.34e+01 1ixxB d.169.1.1 42346 2cz1A 206 1.35e+01 1acf 125 1.35e+01 3nul d.110.1.1 40882 2ahjC 206 1.36e+01 2ahjA d.149.1.1 41773 2ahjA 206 1.36e+01 2ahjA d.149.1.1 41772 1ahjA 207 1.36e+01 2ahjA d.149.1.1 41774 1ug1A 92 1.38e+01 b.34.2.1 99360 2al1A 436 1.39e+01 2al2A 436 1.39e+01 1oneA 436 1.40e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1vquA 374 1.43e+01 2rgf 97 1.44e+01 1lfdA d.15.1.5 37627 1dttA 560 1.51e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 2oneA 436 1.53e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1dloA 556 1.56e+01 1rthA c.55.3.1,e.8.1.2 33584,43040 1wba 175 1.57e+01 1wba b.42.4.1 25591 1fkoB 440 1.58e+01 1rthA e.8.1.2 43095 1h8gA 95 1.62e+01 b.109.1.1 65735 1dynA 125 1.62e+01 1dynA b.55.1.1 26955 1xfsA 178 1.63e+01 d.129.3.5 109589 2fuvA 549 1.63e+01 1bqnA 558 1.64e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1npsA 88 1.65e+01 1prs b.11.1.1 23622 1ps2 60 1.66e+01 2pspA g.16.1.1 44746 1jf2A 195 1.80e+01 1ej3A a.39.1.5 62930 1ww9A 392 1.88e+01 2fqpA 97 1.90e+01 1eo1A 124 1.90e+01 1eo1A c.55.5.1 33739 1ejhA 190 1.90e+01 1ejhA d.86.1.1 40147 1hmpA 217 1.91e+01 1qk3A c.61.1.1 34075 1e79D 482 1.95e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1qz8A 113 1.97e+01 b.140.1.1 96619 2ffsA 157 1.98e+01 1mpyA 307 2.01e+01 1mpyA d.32.1.3,d.32.1.3 38508,38509 1hmvB 440 2.01e+01 1rthA e.8.1.2 43047 1b0jA 754 2.02e+01 1amj c.8.2.1,c.83.1.1 30719,35395 1lxdA 100 2.02e+01 1lfdA d.15.1.5 37624 1yh6A 179 2.03e+01 1bngA 110 2.06e+01 1b20A d.1.1.2 36184 7acn 754 2.08e+01 1amj c.8.2.1,c.83.1.1 30717,35393 1nszA 347 2.11e+01 b.30.5.4 80724 1baoA 110 2.12e+01 1b20A d.1.1.2 36187 1z7gA 217 2.14e+01 1i3zA 103 2.16e+01 d.93.1.1 83667 1ipcA 217 2.20e+01 d.86.1.1 71257 2prf 125 2.21e+01 3nul d.110.1.1 40887 1b2zA 110 2.22e+01 1b20A d.1.1.2 36216 1apa 266 2.24e+01 1qi7A d.165.1.1 42205 1cqa 133 2.24e+01 3nul d.110.1.1 40890 1l7jB 347 2.26e+01 b.30.5.4 73661 2cy2A 174 2.31e+01 1mmuA 347 2.34e+01 b.30.5.4 79303 1fkoA 543 2.39e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 2d7nA 93 2.39e+01 1ywfA 296 2.39e+01 1xygD 359 2.42e+01 1syxB 86 2.44e+01 1xttA 216 2.48e+01 1rnbA 110 2.49e+01 1b20A d.1.1.2 36196 1ahtH 259 2.54e+01 5ptp 1l7jA 347 2.57e+01 b.30.5.4 73660 1ue1A 164 2.57e+01 b.40.4.3 99243 1wfyA 104 2.58e+01 1dx5I 118 2.58e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 1prr 173 2.60e+01 1prs b.11.1.1,b.11.1.1 23623,23624 1uq5A 263 2.62e+01 d.165.1.1 99778 1b21A 110 2.62e+01 1b20A d.1.1.2 36219 1banA 110 2.63e+01 1b20A d.1.1.2 36197 1ywsA 82 2.65e+01 1ift 263 2.66e+01 1mrj d.165.1.1 42211 1yhfA 115 2.68e+01 1bh5A 183 2.69e+01 1qipA d.32.1.1 38476 3nodB 423 2.69e+01 1nseA d.174.1.1 42513 1a2pA 110 2.71e+01 1b20A d.1.1.2 36140 1b2sA 110 2.71e+01 1b20A d.1.1.2 36213 1brhA 110 2.71e+01 1b20A d.1.1.2 36151 1b3sA 110 2.72e+01 1b20A d.1.1.2 36229 1obs 267 2.73e+01 1mrj d.165.1.1 42213 1brnL 110 2.77e+01 1b20A d.1.1.2 36143 1wfuA 120 2.78e+01 1h0hB 214 2.83e+01 d.58.1.5 76437 1qbiA 454 2.84e+01 1c9uA b.68.2.1 27619 1ej1A 190 2.85e+01 1ejhA d.86.1.1 40144 1dloB 427 2.86e+01 1rthA e.8.1.2 43041 1vavA 222 2.89e+01 b.29.1.18 108472 1ee8A 266 2.97e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2exnA 136 3.01e+01 1j1qA 261 3.02e+01 d.165.1.1 90768 2ftwA 521 3.03e+01 1ufkA 254 3.05e+01 c.66.1.39 99340 1m1fA 110 3.07e+01 b.34.6.2 78401 1kyqA 274 3.14e+01 c.2.1.11,e.37.1.1 73281,73282 1ydwA 362 3.19e+01 1wkt 88 3.23e+01 1wkt b.11.1.2 23630 1pot 325 3.27e+01 1pot c.94.1.1 35807 1lfdA 87 3.27e+01 1lfdA d.15.1.5 37622 1gbg 214 3.30e+01 1axkA b.29.1.2 24171 2as0A 396 3.34e+01 1wz4A 23 3.34e+01 2c4bA 143 3.36e+01 2ck3D 482 3.38e+01 1mvfD 82 3.44e+01 b.129.1.1 85143 2acaA 189 3.51e+01 2plt 98 3.52e+01 1plc b.6.1.1 22862 1b35A 260 3.52e+01 1b35A b.121.4.1 23333 1xbfA 140 3.58e+01 d.273.1.1 109538 1j9aA 184 3.61e+01 c.55.3.5 84135 1qu5A 182 3.65e+01 1qu5A b.26.1.2 23922 1zn6A 227 3.65e+01 1vplA 256 3.66e+01 1raxA 115 3.71e+01 1lfdA d.15.1.5 37626 1l8bA 190 3.73e+01 d.86.1.1 73683 1p9uA 302 3.82e+01 b.47.1.4 88001 1ne8A 117 3.84e+01 b.34.6.2 80424 8kme2 259 3.87e+01 1ucyE 1ecsA 126 3.89e+01 1ecsA d.32.1.2 59407 1jtdB 273 3.95e+01 b.69.5.2 67265 1khiA 176 3.95e+01 b.34.5.2,b.40.4.5 77408,77409 1b7aA 186 3.99e+01 1a44 b.17.1.1 23705 2pia 321 4.03e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1so9A 164 4.06e+01 b.146.1.1 105842 1icfI 65 4.08e+01 1icfI g.28.1.1 44958 1vrtA 560 4.13e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1lvoA 302 4.15e+01 b.47.1.4 74284 1rqpA 299 4.23e+01 b.141.1.1,c.132.1.1 97754,97755 1kwkA 645 4.24e+01 b.71.1.1,c.1.8.1,c.23.16.5 77565,77566,77567 1o0xA 262 4.27e+01 d.127.1.1 80755 1cjbA 231 4.29e+01 1qk3A c.61.1.1 34079 1kwgA 645 4.31e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1v04A 355 4.31e+01 b.68.6.2 100240 1q1uA 144 4.47e+01 b.42.1.1 95608 2bz8A 58 4.53e+01 1ewjA 126 4.56e+01 1ecsA d.32.1.2 59526 1ytaA 180 4.57e+01 2gjdA 157 4.63e+01 1a44 185 4.68e+01 1a44 b.17.1.1 23704 2ampA 304 4.68e+01 1rthA 560 4.69e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1vzqH 250 4.69e+01 1kw3B 292 4.75e+01 d.32.1.3,d.32.1.3 77549,77550 1yqzA 438 4.76e+01 1clqA 903 4.79e+01 1clqA c.55.3.5,e.8.1.1 33717,43006 1fnmA 691 4.82e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 25709,32144,37546,39302,39303 1z3qA 200 4.84e+01 1qfoA 119 4.89e+01 1qfoA b.1.1.1 19708 1amj 754 4.89e+01 1amj c.8.2.1,c.83.1.1 30725,35401 8acn 754 4.90e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1j5eE 161 4.94e+01 d.14.1.1,d.50.1.2 71547,71548 2ghpA 292 4.96e+01 1zyeA 220 4.97e+01 1kjkA 64 4.98e+01 d.10.1.4 72613 1ay2 159 4.99e+01 2pil d.24.1.1 38377 1gyfA 62 4.99e+01 1gyfA d.76.1.1 39749 2pil 159 4.99e+01 2pil d.24.1.1 38376 1fjgE 162 5.00e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1ark 60 5.02e+01 1bb9 b.34.2.1 24473 1fk9A 543 5.02e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 2c2xA 281 5.06e+01 1yfuA 174 5.06e+01 1cruA 454 5.07e+01 1c9uA b.68.2.1 27617 1ih7A 903 5.10e+01 1clqA c.55.3.5,e.8.1.1 62375,62376 1yopA 83 5.15e+01 2cf8H 257 5.18e+01 6acn 754 5.19e+01 1amj c.8.2.1,c.83.1.1 30721,35397 2apsA 162 5.25e+01 1yaiA b.1.8.1 22298 1c96A 753 5.28e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1svpA 161 5.31e+01 1svpA b.47.1.3 26384 1x23A 155 5.33e+01 1prs 173 5.34e+01 1prs b.11.1.1,b.11.1.1 23625,23626 1k5hA 398 5.35e+01 a.69.3.1,c.2.1.3,d.81.1.3 68192,68193,68194 1h0bA 256 5.36e+01 b.29.1.11 83422 1olzA 663 5.36e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1qfoC 119 5.41e+01 1qfoA b.1.1.1 19710 1jvsA 400 5.41e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1xfuA 747 5.42e+01 1o12A 376 5.42e+01 b.92.1.5,c.1.9.10 80758,80759 1ihkA 174 5.45e+01 1bfg b.42.1.1 62384 1p27B 106 5.46e+01 d.58.7.1 93908 2bw8A 227 5.54e+01 1f6fB 210 5.56e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1hniB 427 5.70e+01 1rthA e.8.1.2 43045 1vr1H 261 5.72e+01 5ptp 1cyx 205 5.76e+01 1cyx b.6.1.2 23023 1c5lH 259 5.79e+01 5ptp 1p5tA 127 5.80e+01 b.55.1.2 94148 1x31C 206 5.86e+01 1o97C 264 5.87e+01 c.26.2.3 81232 1mml 265 5.87e+01 1mml e.8.1.2 43015 1kwsA 261 5.90e+01 c.68.1.7 73083 2biwA 490 5.91e+01 2bjbA 462 5.93e+01 1f89A 291 5.95e+01 d.160.1.1 64988 1h8dH 260 6.10e+01 5ptp 1spiA 358 6.14e+01 1frpA e.7.1.1 42939 1y4hA 188 6.17e+01 1iuaA 83 6.17e+01 g.35.1.1 71438 1bqk 124 6.19e+01 1bqk b.6.1.1 22889 1q0qA 406 6.20e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1b20A 110 6.21e+01 1b20A d.1.1.2 36207 1mugA 168 6.27e+01 1mugA c.18.1.2 31030 1d3bA 75 6.31e+01 1d3bA b.38.1.1 24798 1j9lA 247 6.41e+01 c.106.1.1 62762 1j9jA 247 6.44e+01 c.106.1.1 62758 1qcxA 359 6.56e+01 1qcxA b.80.1.2 28028 2akaA 776 6.56e+01 1h12A 405 6.60e+01 a.102.1.2 83447 1wm1A 317 6.61e+01 c.69.1.7 109405 2cdcA 366 6.74e+01 2dynA 122 6.76e+01 1dynA b.55.1.1 26957 1feuA 206 6.77e+01 1feuA b.53.1.1 59801 1hb5A 394 6.80e+01 i.6.1.1 65752 1hx6A 394 6.80e+01 1cjdA b.121.2.1,b.121.2.1 58995,58996 1noyA 388 6.82e+01 1clqA c.55.3.5 33713 1dar 691 6.83e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1lvmA 229 6.90e+01 b.47.1.3 78243 1y71A 130 6.94e+01 1cyw 205 7.02e+01 1cyx b.6.1.2 23024 1fggA 261 7.08e+01 1fggA c.68.1.7 34576 1pxvA 183 7.10e+01 d.3.1.1 95301 1ap8 213 7.11e+01 1ap8 d.86.1.1 40151 1xuvA 178 7.13e+01 487dH 224 7.13e+01 1ad2 i.1.1.2 45835 1jbbA 153 7.14e+01 1u9aA d.20.1.1 62842 1uv4A 293 7.15e+01 1ryaA 160 7.15e+01 d.113.1.5 105122 1ad2 228 7.15e+01 1ad2 e.24.1.1 43353 1p7gA 222 7.22e+01 a.2.11.1,d.44.1.1 94223,94224 2al3A 90 7.24e+01 1a62 130 7.35e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1pcs 98 7.38e+01 1plc b.6.1.1 22871 1lqsR 214 7.40e+01 b.1.2.1,b.1.2.1 74194,74195 1rqwA 207 7.41e+01 b.25.1.1 97781 1j58A 385 7.43e+01 b.82.1.2 71531 1thw 207 7.44e+01 1thv b.25.1.1 23903 1oqkA 97 7.50e+01 b.137.1.1 93419 1b9vA 390 7.52e+01 2qwc b.68.1.1 27603 1s6lA 212 7.64e+01 1nulA 152 7.66e+01 1nulA c.61.1.1 34011 2c7xA 436 7.68e+01 1bcpC 199 7.85e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 1xw2A 405 7.86e+01 1qtsA 247 7.89e+01 1qtsA b.1.10.1,d.105.1.1 22313,40789 1lcyA 325 7.91e+01 b.36.1.4,b.47.1.1 73834,73835 1bnr 110 7.99e+01 1b20A d.1.1.2 36206 1vrmA 325 8.11e+01 1xwtA 405 8.19e+01 2h3bA 494 8.20e+01 2f4wA 187 8.21e+01 1gh9A 71 8.26e+01 1gh9A g.41.6.1 45266 1xtoA 311 8.35e+01 1gmnA 183 8.35e+01 g.10.1.1,g.14.1.1 65315,65316 2bf6A 449 8.41e+01 1wiwA 290 8.44e+01 1ac0 108 8.46e+01 1kum b.3.1.1 22526 1voqa 90 8.49e+01 1n3yA 198 8.50e+01 c.62.1.1 79976 1kf6A 602 8.51e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1mh0A 287 8.55e+01 b.47.1.2 79110 1ucyE 109 8.62e+01 1ucyE 1gzqA 300 8.65e+01 b.1.1.2,d.19.1.1 70818,70819 1u3oA 82 8.65e+01 1ihmA 530 8.67e+01 1ihmA b.121.4.3 62385 1mswD 883 8.68e+01 e.8.1.3 79427 1l4sA 112 8.75e+01 d.204.1.1 77693 1rpyA 114 8.75e+01 d.93.1.1 97718 1xewY 172 8.80e+01 1igwA 434 8.82e+01 c.1.12.7 62370 1nozA 388 8.82e+01 1clqA c.55.3.5 33715 1sv0C 82 8.83e+01 a.60.1.1 106037 2fymA 431 8.89e+01 1dytA 133 8.89e+01 7rsa d.5.1.1 37288 1tfe 145 8.98e+01 1tfe d.43.1.1 38680