# List of top-scoring protein chains for t04-100-30-alpha 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 1nnwA 252 7.57e-01 d.159.1.5 80674 1s2xA 206 9.13e-01 1gw5S 142 9.22e-01 d.110.4.2 70633 1q8bA 105 1.13e+00 unknown_sccs -9958 1fuiA 591 1.43e+00 1fuiA b.43.2.1 25674 c.85.1.1 35444 1rkuA 206 2.09e+00 unknown_sccs -6823 1nffA 260 2.32e+00 c.2.1.2 80457 1kveB 77 2.37e+00 1kveB 1pk5A 248 2.87e+00 a.123.1.1 88139 1s72C 246 2.94e+00 1jj2C 246 2.95e+00 1ffkC c.22.1.1 63087 1hi9A 274 3.85e+00 1hi9A c.99.1.1 61063 1gvoA 364 3.93e+00 c.1.4.1 76357 1h61A 364 4.01e+00 1oyc c.1.4.1 60657 1vyrA 364 4.03e+00 1vypX 364 4.10e+00 1vi6A 208 4.38e+00 c.23.15.1 -6489 1n82A 331 4.58e+00 c.1.8.3 -5306 1eonA 245 4.59e+00 1rvaA c.52.1.2 33238 1htjF 210 4.64e+00 1htjF a.91.1.1 61254 1i8jA 323 4.82e+00 1b4kA c.1.10.3 61968 1f75A 249 4.89e+00 1f75A c.101.1.1 59662 1l7mA 211 5.00e+00 c.108.1.4 73664 1frpA 335 5.24e+00 1frpA e.7.1.1 42875 1hfc 169 5.27e+00 1hfc d.92.1.11 40335 1rvaA 244 5.29e+00 1rvaA c.52.1.2 33240 1ut8A 291 5.37e+00 a.60.7.1 -1036 c.120.1.2 -6675 1qnxA 209 5.63e+00 1qnxA d.111.1.1 40914 1l6sA 323 5.74e+00 c.1.10.3 73627 1cqmA 101 5.88e+00 1ris d.58.14.1 39321 1t3uA 104 6.13e+00 unknown_sccs -9325 1qydA 313 6.16e+00 c.2.1.2 -5786 1udmA 149 6.51e+00 1jk0A 419 7.17e+00 a.25.1.2 63142 1senA 164 7.18e+00 1iq8A 582 7.18e+00 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1wpoA 256 7.60e+00 1lay b.57.1.1 27012 1uzbA 516 8.06e+00 c.82.1.1 -8552 1sx5A 244 8.13e+00 c.52.1.2 -7551 1d2eA 397 8.18e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1nf8A 207 8.47e+00 unknown_sccs 85630 1j97A 211 8.84e+00 1f5sA c.108.1.4 62753 1ei6A 406 9.14e+00 unknown_sccs -8436 1fc4A 401 9.25e+00 1bs0A c.67.1.4 59760 1souA 194 9.47e+00 1edqA 540 9.87e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1ctn 540 1.10e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1louA 101 1.13e+01 1ris d.58.14.1 39323 1nf9A 207 1.15e+01 unknown_sccs 85631 1v64A 108 1.18e+01 1goiA 499 1.23e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1bb9 115 1.25e+01 1bb9 b.34.2.1 24554 1qu9A 128 1.27e+01 1qu9A d.79.1.1 39755 1euhA 475 1.27e+01 1euhA c.82.1.1 35369 1pf5A 131 1.29e+01 d.79.1.1 -10368 1qsmA 152 1.33e+01 1qsmA d.108.1.1 40808 1b0pA 1231 1.34e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1es5A 262 1.37e+01 1skf e.3.1.1 42679 1nrjB 218 1.40e+01 c.37.1.8 86125 1qr0A 228 1.41e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1o04A 500 1.45e+01 c.82.1.1 86508 1pqzA 238 1.46e+01 1rztA 331 1.51e+01 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1kekA 1231 1.58e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1um0A 365 1.70e+01 1fukA 165 1.71e+01 1fukA c.37.1.19 32409 1qycA 308 1.76e+01 c.2.1.2 -5782 1go3F 107 1.80e+01 a.60.8.2 65407 1moq 368 1.81e+01 1moq c.80.1.1 35302 1atlA 202 1.84e+01 1atlA d.92.1.9 40322 1e6pA 499 1.85e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1ftrA 296 1.85e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1kshA 186 1.96e+01 c.37.1.8 72914 1ix9A 205 2.00e+01 a.2.11.1 76899 d.44.1.1 76900 1g7sA 594 2.00e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1at3A 247 2.02e+01 1at3A b.57.1.1 27021 1hdcA 253 2.09e+01 1e6wA c.2.1.2 29862 1j57A 143 2.11e+01 d.221.1.1 77079 1hjxA 362 2.12e+01 c.1.8.5 83512 d.26.3.1 83513 1aqcA 172 2.20e+01 1x11A b.55.1.2 26983 1sedA 117 2.27e+01 1cnt1 187 2.27e+01 1cnt3 1oqcA 125 2.32e+01 a.24.15.1 87264 1qrrA 394 2.35e+01 1qrrA c.2.1.2 29824 1azsA 220 2.38e+01 1azsA d.58.29.1 39416 1j2gA 319 2.42e+01 1i0hA 205 2.45e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1nykA 165 2.52e+01 b.33.1.1 86408 1elkA 157 2.54e+01 1dvpA a.118.9.2 19217 1qamA 244 2.55e+01 2ercA c.66.1.24 34220 1o4rA 108 2.59e+01 d.93.1.1 -10624 1i24A 404 2.60e+01 c.2.1.2 83663 1shdA 107 2.61e+01 1fmk d.93.1.1 40440 1fwsA 267 2.67e+01 1d9eA c.1.10.4 60063 1thtA 305 2.71e+01 1thtA c.69.1.13 34711 1xo1A 291 2.74e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 1fo1A 271 2.81e+01 1fo1A c.10.2.3 30869 d.58.7.2 39213 1qm4A 396 2.81e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1e9gA 286 2.88e+01 1wgjA b.40.5.1 59393 1esiA 262 2.88e+01 1skf e.3.1.1 42682 1pytA 94 2.93e+01 1pytA d.58.3.1 39064 1sbp 310 2.97e+01 1sbp c.94.1.1 35760 1p1lA 102 2.98e+01 d.58.5.2 87695 1qsoA 149 3.00e+01 1qsmA d.108.1.1 40812 1clxA 347 3.04e+01 1taxA c.1.8.3 28899 1ez0A 510 3.05e+01 1eyyA c.82.1.1 35385 1a8rA 221 3.08e+01 1a8rA d.96.1.1 40587 1lc0A 294 3.09e+01 c.2.1.3 73823 d.81.1.4 73824 1f42A 306 3.10e+01 1f42A b.1.1.4 59636 b.1.2.1 59637 b.1.2.1 59638 1edt 271 3.17e+01 2ebn c.1.8.5 28993 1tk9A 188 3.21e+01 1tia 279 3.23e+01 3tgl c.69.1.17 34737 2aaiB 262 3.31e+01 1abrB b.42.2.1 25561 b.42.2.1 25562 1od6A 160 3.31e+01 c.26.1.3 86836 1uocA 289 3.33e+01 unknown_sccs -7671 1oyiA 82 3.33e+01 a.4.5.19 -292 1i5gA 144 3.35e+01 1ewxA c.47.1.10 61784 1jetA 517 3.37e+01 1jevA c.94.1.1 35718 1kk1A 410 3.37e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1jh6A 189 3.39e+01 d.61.1.1 66707 1i9gA 280 3.42e+01 c.66.1.13 62090 1gcuA 295 3.45e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1vhwA 253 3.49e+01 c.56.2.1 -7765 1jtvA 327 3.51e+01 c.2.1.2 84230 1gyzA 60 3.55e+01 a.144.2.1 70793 1e4fT 419 3.60e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 4pgaA 337 3.63e+01 4pgaA c.88.1.1 35565 1lqtA 456 3.63e+01 c.3.1.1 74198 c.4.1.1 74199 1v8dA 235 3.63e+01 1q45A 391 3.65e+01 c.1.4.1 -5199 1r6uA 437 3.66e+01 c.26.1.1 -6594 1f3mC 297 3.77e+01 1hcl d.144.1.7 41677 1b16A 254 3.82e+01 1b16A c.2.1.2 29875 1ka9H 200 3.83e+01 c.23.16.1 77308 1a7j 290 3.93e+01 1a7j c.37.1.6 31952 1a0jA 223 3.94e+01 5ptp b.47.1.2 26002 2olbA 517 3.94e+01 1jevA c.94.1.1 35721