# List of top-scoring protein chains for t2k-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 1dhn 121 2.08e-27 1dhn d.96.1.3 40663 1b9lA 120 6.19e-24 1b9lA d.96.1.3 40665 1a6q 382 4.12e-03 1a6q d.158.1.1 42063 1kdxA 81 1.16e-01 1kdxA a.12.1.1 16375 1jjiA 311 6.28e-01 c.69.1.2 66766 1pmaA 233 1.08e+00 1pmaA d.153.1.4 41918 1lfaA 187 1.29e+00 1ido c.62.1.1 34122 1cpzA 68 1.38e+00 1aw0 d.58.17.1 39351 1knb 196 1.58e+00 1qhvA b.21.1.1 23841 1qpaA 345 2.39e+00 1arv a.93.1.1 18585 1cc1L 498 3.04e+00 1h2rL e.18.1.1 43301 1cz1A 394 3.45e+00 1cz1A c.1.8.3 28839 1eqcA 394 3.57e+00 1cz1A c.1.8.3 28811 1uox 296 3.69e+00 1uox d.96.1.4 40673 d.96.1.4 40674 1b9zA 516 5.19e+00 1b9zA b.3.1.1 22528 c.1.8.2 28798 5bcaA 516 5.69e+00 1b9zA b.3.1.1 22529 c.1.8.2 28799 1emsA 440 7.16e+00 1emsA d.13.1.1 37520 d.160.1.1 42086 1ag2 103 9.25e+00 1b10A d.6.1.1 37305 2arcA 164 9.59e+00 2arcA b.82.4.1 28148 1ef1A 294 1.09e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1nsyA 271 1.12e+01 2nsyA c.26.2.1 31614 2arcB 164 1.17e+01 2arcA b.82.4.1 28149 1h6oA 204 1.19e+01 a.146.1.1 60689 1pdo 135 1.23e+01 1pdo c.54.1.1 33376 1hyeA 313 1.25e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1a3c 181 1.42e+01 1a3c c.61.1.1 34095 1afi 72 1.46e+01 1aw0 d.58.17.1 39339 1gx3A 284 1.50e+01 1kqpA 271 1.51e+01 1lid 131 1.56e+01 1hmt b.60.1.2 27184 1l1oC 181 1.60e+01 1eudB 396 1.60e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1ek4A 418 1.60e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 1fwrA 213 1.61e+01 1fwrA c.1.10.1 29164 2nsyA 271 1.65e+01 2nsyA c.26.2.1 31612 1qm3A 112 1.70e+01 1b10A d.6.1.1 37313 1amuA 563 1.70e+01 1amuA e.23.1.1 43351 1itxA 419 1.72e+01 1fq0A 213 1.78e+01 1fwrA c.1.10.1 29161 1cf7B 95 1.86e+01 1cf7B a.4.5.17 16152 1qm1A 143 1.97e+01 1b10A d.6.1.1 37312 1is8A 230 2.12e+01 d.96.1.1 66321 1ih8A 271 2.14e+01 2nsyA c.26.2.1 62377 1dh3A 55 2.31e+01 1a02J h.1.3.1 45546 1rypJ 204 2.32e+01 d.153.1.4 41878 1dn1A 594 2.38e+01 1dn1A e.25.1.1 43357 1euaA 213 2.53e+01 1fwrA c.1.10.1 29155 1d5rA 324 2.53e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1dd8A 406 2.57e+01 1dd8A c.95.1.1 35932 c.95.1.1 35933 1brwA 433 2.57e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1sacA 204 2.69e+01 1sacA b.29.1.5 24237 1b10A 142 2.74e+01 1b10A d.6.1.1 37306 1pmi 440 2.75e+01 1pmi b.82.1.3 28114 1fps 348 2.76e+01 1uby a.128.1.1 19436 1emwA 88 2.96e+01 1emwA d.27.1.1 38448 1e69B 322 3.04e+01 1e69B c.37.1.12 32377 1ytfD 121 3.04e+01 1ytfD a.32.1.1 16998 b.56.1.1 27011 1fzyA 149 3.05e+01 d.20.1.1 65072 1a0i 348 3.05e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1bvzA 585 3.12e+01 1bvzA b.1.1.5 21856 b.71.1.1 27783 c.1.8.1 28770 1k47A 337 3.13e+01 1hdr 244 3.27e+01 1dhr c.2.1.2 29837 1bxiB 134 3.29e+01 1bxiB d.4.1.1 37136 1dat 174 3.31e+01 2fha a.25.1.1 16677 1nif 340 3.33e+01 1nif b.6.1.3 23048 b.6.1.3 23049 1hbzA 498 3.47e+01 1cf9A e.5.1.1 60937 1a16 440 3.48e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1tin 69 3.61e+01 2sniI d.40.1.1 38580 1gtqA 140 3.65e+01 1b66A d.96.1.2 40661 1jflA 228 3.65e+01 1auiB 169 3.66e+01 1auiB a.39.1.5 17325 1emvB 134 3.73e+01 1bxiB d.4.1.1 37135 1booA 323 3.90e+01 1booA c.66.1.11 34248 1dhr 241 3.92e+01 1dhr c.2.1.2 29832 6acn 754 3.97e+01 1amj c.8.2.1 30721 c.83.1.1 35397