# 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 1svy 114 9.33e-01 1svy d.109.1.1 40831 1svq 114 1.54e+00 1svy d.109.1.1 40832 1svr 114 1.87e+00 1svy d.109.1.1 40833 1v7zA 260 3.61e+00 unknown_sccs -6353 1ufhA 180 3.63e+00 d.108.1.1 88485 1on0A 158 4.25e+00 d.108.1.1 87095 1q3kA 259 5.83e+00 unknown_sccs -6335 1kcqA 104 6.66e+00 d.109.1.1 68449 1hdkA 141 6.76e+00 b.29.1.3 65807 1g86A 142 6.82e+00 b.29.1.3 70161 1lcl 142 6.82e+00 1lcl b.29.1.3 24216 1vhoA 346 9.78e+00 unknown_sccs -4283 c.56.5.4 -7893 1i05A 180 1.03e+01 1mup b.60.1.1 27130 1m1cA 680 1.13e+01 e.42.1.1 78395 1clqA 903 1.14e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1iw7C 1119 1.18e+01 e.29.1.1 71474 1qy1A 174 1.19e+01 b.60.1.1 -4445 1i06A 180 1.21e+01 1mup b.60.1.1 27131 1ej6D 418 1.23e+01 i.7.1.1 45970 1cs0C 1073 1.27e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1ve9A 347 1.33e+01 c.4.1.2 -6056 d.16.1.3 -9214 8ohm 435 1.34e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1jeyA 609 1.38e+01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1e0tA 470 1.38e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1awe 130 1.48e+01 1awe b.55.1.1 26968 1an9A 340 1.48e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1j0hA 588 1.52e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1bxrA 1073 1.53e+01 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1qwdA 177 1.61e+01 b.60.1.1 -4455 1fwcC 567 1.64e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1m7vA 363 1.65e+01 d.174.1.1 78748 1bj8 109 1.67e+01 1bquA b.1.2.1 22070 1bpoA 494 1.68e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 2hft 218 1.68e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1kngA 156 1.70e+01 c.47.1.10 72777 1gcb 454 1.73e+01 3gcb d.3.1.1 37034 1neu 124 1.76e+01 1neu b.1.1.1 19704 1uwwA 191 1.76e+01 1c3oA 1073 1.79e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1giqA 413 1.81e+01 d.166.1.1 76224 d.166.1.1 76225 1a6r 471 1.84e+01 3gcb d.3.1.1 37033 1keeA 1073 1.85e+01 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1krhA 338 1.87e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1mjgM 729 1.93e+01 e.26.1.3 79204 4bcl 366 1.94e+01 4bcl b.75.1.1 27968 1ky3A 182 1.99e+01 c.37.1.8 73193 1keeC 1073 2.11e+01 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1dkxA 219 2.13e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 3gcb 470 2.16e+01 3gcb d.3.1.1 37032 1p9sA 300 2.18e+01 b.47.1.4 87999 1quqB 121 2.20e+01 1quqB b.40.4.3 25305 2aop 497 2.22e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1jeqA 609 2.22e+01 1jeqA a.140.2.1 64748 unknown_sccs -4427 unknown_sccs -7991 1i7qA 519 2.25e+01 1qdlA d.161.1.1 61901 1ejrC 567 2.29e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 1bquA 215 2.31e+01 1bquA b.1.2.1 22066 b.1.2.1 22067 1i50B 1224 2.48e+01 e.29.1.1 61755 1jv4A 162 2.49e+01 b.60.1.1 67343 1utcA 363 2.49e+01 a.118.1.4 -1568 b.69.6.1 -4612 1d4vB 163 2.57e+01 1d4vB b.22.1.1 23884 1danU 121 2.61e+01 1boy b.1.2.1 21954 1nciA 110 2.63e+01 1edhA b.1.6.1 22191 1ncg 110 2.66e+01 1edhA b.1.6.1 22193 1gvoA 364 2.74e+01 c.1.4.1 76357 1c3oE 1073 2.75e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1ejxC 567 2.75e+01 b.92.1.1 83184 c.1.9.2 83185 1th8A 145 2.75e+01 1nb9A 147 2.81e+01 b.43.5.1 85515 1k42A 168 2.81e+01 b.18.1.14 72032 1mdoA 393 2.81e+01 c.67.1.4 79013 4rnpA 883 2.82e+01 1cezA e.8.1.3 43113 1s72X 92 2.84e+01 1jj2W 91 2.85e+01 1ffkU d.29.1.1 63108 1aa8A 347 2.86e+01 1an9A 32c2A 217 2.87e+01 32c2A b.1.1.1 20438 b.1.1.2 21404 1h61A 364 2.88e+01 1oyc c.1.4.1 60657 1iv8A 720 2.92e+01 b.71.1.1 76842 c.1.8.1 76843 1avaC 181 2.92e+01 1avaC b.42.4.1 25604 1ihp 438 2.98e+01 1ihp c.60.1.2 33993 1pkn 530 3.00e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1a3k 137 3.02e+01 1a3k b.29.1.3 24218 1q15A 503 3.08e+01 c.26.2.1 -6625 d.153.1.1 -11400 1gu7A 364 3.08e+01 b.35.1.2 83321 c.2.1.1 83322 1jayA 212 3.10e+01 c.2.1.6 66478 1boy 219 3.12e+01 1boy b.1.2.1 21955 b.1.2.1 21956 1i1gA 141 3.16e+01 a.4.5.32 65982 d.58.4.2 65983 1jofA 365 3.20e+01 b.69.10.1 71775 1dg6A 191 3.24e+01 1d4vB b.22.1.1 23883 1ntyA 311 3.34e+01 1isiA 265 3.34e+01 e.4.1.1 71394 1m1lA 236 3.39e+01 unknown_sccs -11674 1jdbB 1073 3.41e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1hfuA 503 3.44e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1c8pA 102 3.51e+01 1c8pA b.1.2.1 22040 1a65A 504 3.57e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1vypX 364 3.57e+01 1iqpA 327 3.57e+01 a.80.1.1 62649 c.37.1.20 62650 1j7xA 302 3.65e+01 c.14.1.2 66425 1obpA 159 3.69e+01 1obpA b.60.1.1 27092 1a9xA 1058 3.71e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1dkzA 219 3.75e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1k7kA 221 3.76e+01 c.51.4.1 72104 1r4xA 275 3.79e+01 unknown_sccs -2846 unknown_sccs -10776 1bc8C 93 3.83e+01 1awcA a.4.5.21 16168 1cd8 114 3.88e+01 1cd8 b.1.1.1 19714 1i40A 175 3.90e+01 b.40.5.1 66024 1oniA 137 3.96e+01 d.79.1.1 87144 1c3oG 1073 3.97e+01 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 1df3A 162 3.99e+01 1mup b.60.1.1 27134