# 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 1am7A 158 1.13e-01 1am7A d.2.1.4 36981 1b65A 375 4.32e-01 1b65A d.154.1.1 42020 1pjcA 361 4.33e-01 1sayA c.2.1.4 30101 c.23.12.2 31361 1ezvD 245 4.46e-01 1be3D a.3.1.3 59546 f.2.1.8 59547 1sayA 361 4.53e-01 1sayA c.2.1.4 30102 c.23.12.2 31362 1pjbA 361 6.02e-01 1sayA c.2.1.4 30103 c.23.12.2 31363 1irw 108 6.34e-01 1ycc a.3.1.1 15855 5cytR 104 7.18e-01 1ycc a.3.1.1 15878 1ycc 108 7.75e-01 1ycc a.3.1.1 15834 1qqfA 277 9.08e-01 1c3d a.102.4.4 18875 1ccr 112 1.06e+00 1ycc a.3.1.1 15877 1ytc 112 1.32e+00 1ycc a.3.1.1 15835 1aj8A 371 1.48e+00 1aj8A a.103.1.1 18900 1byqA 228 2.42e+00 1yer d.122.1.1 41100 1qnrA 344 2.56e+00 1qnoA c.1.8.3 28834 1d2zA 108 2.69e+00 1d2zA a.77.1.1 18437 1qnoA 344 3.31e+00 1qnoA c.1.8.3 28838 1kwhA 492 3.67e+00 c.94.1.1 68876 1yer 228 4.06e+00 1yer d.122.1.1 41101 1gai 472 4.08e+00 1ayx a.102.1.1 18819 1glm 470 4.09e+00 1ayx a.102.1.1 18821 1g2nA 264 5.32e+00 1lbd a.123.1.1 60227 1hc7A 477 5.81e+00 1hc7A c.51.1.1 60938 d.104.1.1 60939 g.56.1.1 60940 1ayyA 151 5.89e+00 1apyA d.153.1.5 42016 1d2nA 272 6.18e+00 1d2nA c.37.1.13 32428 1g73C 121 6.27e+00 1g3fA g.52.1.1 45375 1nsf 273 6.86e+00 1d2nA c.37.1.13 32429 1i7pA 274 7.19e+00 b.43.4.2 66048 c.25.1.1 66049 1d9tA 289 7.40e+00 1deaA c.35.1.1 31767 1ndh 272 8.14e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1reqD 637 8.53e+00 1reqB c.1.19.1 29623 c.23.6.1 31250 1reqB 637 8.86e+00 1reqB c.1.19.1 29621 c.23.6.1 31248 1prxA 224 1.20e+01 1prxA c.47.1.10 33076 1kp9B 287 1.23e+01 c.66.1.18 68734 1l5jA 865 1.24e+01 1qi9A 556 1.28e+01 1qhbA a.111.1.2 19053 1ebmA 317 1.30e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1g3fA 117 1.33e+01 1g3fA g.52.1.1 45378 1ggwA 140 1.34e+01 1ggwA a.39.1.5 60490 1ayx 492 1.38e+01 1ayx a.102.1.1 18825 1bal 51 1.56e+01 1bbl a.9.1.1 16357 1hcxA 127 1.60e+01 b.109.1.1 65800 9gafA 295 1.64e+01 1apyA d.153.1.5 42008 1qlnA 883 1.69e+01 1cezA e.8.1.3 43111 1ckv 141 1.70e+01 1ckv d.137.1.1 41452 1cezA 883 1.72e+01 1cezA e.8.1.3 43110 1bazA 53 1.83e+01 1bazA a.43.1.1 17421 1bbl 51 1.87e+01 1bbl a.9.1.1 16356 1aroP 883 1.89e+01 1cezA e.8.1.3 43112 1co6A 107 1.93e+01 1ycc a.3.1.1 15894 1ft1A 377 2.01e+01 1ft1A a.118.6.1 19186 1qbqA 333 2.10e+01 1ft1A a.118.6.1 19187 1ia9A 280 2.17e+01 1ia9A d.144.1.5 62113 1irqA 71 2.20e+01 a.43.1.2 66297 1b66A 140 2.22e+01 1b66A d.96.1.2 40657 1gp6A 356 2.25e+01 b.82.2.1 65441 1nfa 178 2.26e+01 1a02N b.2.5.1 22442 1c3d 294 2.27e+01 1c3d a.102.4.4 18874 1fvgA 199 2.31e+01 1fvaA d.58.28.1 39408 1jj2M 186 2.36e+01 1ffkK c.55.4.1 63098 1gp4A 356 2.37e+01 b.82.2.1 65439 1ko9A 345 2.42e+01 a.96.1.3 68717 d.129.1.2 68718 1fshA 105 2.43e+01 1fshA a.4.5.31 60006 1chmA 401 2.43e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1bqcA 302 2.52e+01 1bqcA c.1.8.3 28831 1jcqA 382 2.53e+01 a.118.6.1 66504 1f89A 291 2.56e+01 d.160.1.1 64988 1ld8A 382 2.56e+01 1hylA 230 2.58e+01 5ptp b.47.1.2 26076 1bzg 34 2.62e+01 1bzg j.15.1.1 46166 1fggA 261 2.64e+01 1fggA c.68.1.7 34576 1ffkK 186 2.69e+01 1ffkK c.55.4.1 33731 1inp 400 2.73e+01 1inp e.7.1.1 42972 2hlcA 230 2.74e+01 5ptp b.47.1.2 26074 1mntA 76 2.77e+01 1bazA a.43.1.1 17453 1qlwA 328 2.87e+01 1qlwA c.69.1.15 34722 1rypJ 204 2.88e+01 d.153.1.4 41878 1pls 113 2.99e+01 1pls b.55.1.1 26965 1ayoA 130 2.99e+01 1ayoA b.2.4.1 22431 1g291 372 3.01e+01 1g291 1kwsA 261 3.02e+01 1jj2W 91 3.05e+01 1ffkU d.29.1.1 63108 2bbkL 125 3.08e+01 2bbkL g.21.1.1 44882 1a6q 382 3.11e+01 1a6q d.158.1.1 42063 1jli 112 3.11e+01 1jli a.26.1.2 16884 1jcrA 377 3.13e+01 a.118.6.1 66506 1pme 380 3.16e+01 1hcl d.144.1.1 41653 1b0nB 57 3.17e+01 1b0nB a.34.1.1 17002 1ermA 263 3.18e+01 1btl e.3.1.1 42690 1qgeE 97 3.26e+01 1cvl 1h2aS 317 3.34e+01 2frvA e.19.1.1 43311 1ckiA 317 3.39e+01 1csn d.144.1.1 41660 1fvaA 217 3.44e+01 1fvaA d.58.28.1 39409 1tf4A 605 3.49e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1k1gA 131 3.53e+01 d.51.1.1 68015 1tubA 440 3.53e+01 1tubA c.32.1.1 31751 d.79.2.1 39803 1kxlA 199 3.56e+01 1ft9A 222 3.56e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1kpgA 287 3.62e+01 c.66.1.18 68735 1d8dA 377 3.64e+01 1ft1A a.118.6.1 19185 1imoA 88 3.65e+01 1imoA c.15.1.2 62590 1put 106 3.66e+01 1ayfA d.15.4.1 37680 1rypH 205 3.68e+01 d.153.1.4 41876 1regX 122 3.73e+01 1regX d.58.27.1 39406 1acf 125 3.82e+01 3nul d.110.1.1 40882 1gtqA 140 3.85e+01 1b66A d.96.1.2 40661 1c2rA 116 3.95e+01 1ycc a.3.1.1 15887 1mkaA 171 3.96e+01 1mkaA d.38.1.2 38543