# 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 1jrmA 104 5.14e-13 d.206.1.1 67136 1qj2B 809 5.19e-02 1qj2B d.41.1.1 38589 d.133.1.1 41419 1qh3A 260 5.61e-01 1qh5A d.157.1.2 42059 1tn3 137 6.64e-01 1htn d.169.1.1 42423 1qh5A 260 7.70e-01 1qh5A d.157.1.2 42057 1reqB 637 8.49e-01 1reqB c.1.19.1 29621 c.23.6.1 31248 1htn 182 9.79e-01 1htn d.169.1.1 42424 h.1.1.1 45426 7at1B 154 1.52e+00 8atcB d.58.2.1 39053 g.41.7.1 45305 1j97A 211 1.78e+00 1f5sA c.108.1.4 62753 1jj2R 84 1.84e+00 1ffkP d.12.1.1 63103 1p35A 299 1.88e+00 1p35A b.28.1.1 23925 1l7mA 211 2.02e+00 1f5sA 211 2.03e+00 1f5sA c.108.1.4 59656 1e25A 282 2.74e+00 1e25A e.3.1.1 42731 1jj2W 91 3.01e+00 1ffkU d.29.1.1 63108 1ffkU 91 3.06e+00 1ffkU d.29.1.1 38458 6cts 433 3.52e+00 1csh a.103.1.1 18891 1dptA 117 4.38e+00 1dptA d.80.1.3 39862 8atcB 154 4.68e+00 8atcB d.58.2.1 39027 g.41.7.1 45279 1reqD 637 4.72e+00 1reqB c.1.19.1 29623 c.23.6.1 31250 1kas 412 4.93e+00 1dd8A c.95.1.1 35964 c.95.1.1 35965 1d09B 153 5.37e+00 8atcB d.58.2.1 39015 g.41.7.1 45267 2pth 193 5.40e+00 2pth c.56.3.1 33793 1gg4A 452 5.44e+00 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1rlaA 323 5.93e+00 1d3vA c.42.1.1 32561 1k5hA 398 6.16e+00 a.69.3.1 68192 c.2.1.3 68193 d.81.1.3 68194 1d3vA 323 6.27e+00 1d3vA c.42.1.1 32559 1ff9A 450 6.90e+00 1ff9A c.2.1.3 30039 d.81.1.2 39954 1nfa 178 6.97e+00 1a02N b.2.5.1 22442 1b3nA 412 7.10e+00 1dd8A c.95.1.1 35966 c.95.1.1 35967 2bc2B 227 7.26e+00 1a7tA d.157.1.1 42032 1shsA 147 7.30e+00 1shsA b.15.1.1 23675 1j6zA 376 7.51e+00 1yagA c.55.1.1 62667 c.55.1.1 62668 1gnuA 117 7.65e+00 d.15.1.3 65403 1hfoA 113 7.93e+00 d.80.1.3 61006 2nacA 393 8.67e+00 2nadA c.2.1.4 30088 c.23.12.1 31348 1wba 175 8.99e+00 1wba b.42.4.1 25591 1jy8A 159 9.00e+00 d.79.5.1 67452 1tl2A 236 9.30e+00 1tl2A b.67.1.1 27541 1gx1A 160 1.01e+01 2bc2A 227 1.05e+01 1a7tA d.157.1.1 42031 1eluB 390 1.11e+01 1elqA c.67.1.3 34435 1elqA 390 1.14e+01 1elqA c.67.1.3 34436 1eluA 390 1.16e+01 1elqA c.67.1.3 34434 1eg5A 384 1.17e+01 1ecxA c.67.1.3 34429 1aj0 282 1.17e+01 1aj2 c.1.21.1 29667 1j6wA 175 1.19e+01 1j98A d.185.1.2 62663 1e8cA 498 1.21e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 2hqi 72 1.22e+01 1aw0 d.58.17.1 39340 1ecxA 384 1.22e+01 1ecxA c.67.1.3 34431 1hlgA 371 1.23e+01 1hlgA c.69.1.6 34656 1d3yA 301 1.26e+01 1d3yA e.12.1.1 43252 1seiA 130 1.27e+01 1seiA d.140.1.1 41463 2oatA 439 1.29e+01 2dkb c.67.1.4 34452 1yagA 375 1.37e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1aj2 282 1.39e+01 1aj2 c.1.21.1 29665 1ipcA 217 1.39e+01 2btfA 375 1.40e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 2u1a 88 1.50e+01 2u1a d.58.7.1 39164 1ew3A 159 1.50e+01 1mup b.60.1.1 27114 1lpuA 332 1.53e+01 1oatA 439 1.53e+01 2dkb c.67.1.4 34461 1hg5A 289 1.56e+01 1hg5A a.118.10.1 19221 1ejhA 190 1.60e+01 1ejhA d.86.1.1 40147 1ffkP 84 1.60e+01 1ffkP d.12.1.1 37493 1j4wA 174 1.60e+01 1a59 378 1.61e+01 1aj8A a.103.1.1 18902 1hztA 190 1.62e+01 1i9aA d.113.1.2 61459 1i9aA 182 1.71e+01 1i9aA d.113.1.2 62082 3nul 130 1.73e+01 3nul d.110.1.1 40891 1hzpA 335 1.79e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1yacA 208 1.83e+01 1yacA c.33.1.2 31757 1d4xA 375 1.94e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1qqsA 174 1.97e+01 1nglA b.60.1.1 27143 1dgaA 375 2.03e+01 1yagA c.55.1.1 33441 c.55.1.1 33442 1b24A 188 2.15e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1ad1A 266 2.21e+01 1aj2 c.1.21.1 29668 1ekeA 230 2.21e+01 1ekeA c.55.3.1 33572 9atcB 146 2.22e+01 8atcB d.58.2.1 39057 g.41.7.1 45309 1i35A 95 2.25e+01 d.15.1.5 66017 1ah9 71 2.31e+01 1ah9 b.40.4.5 25330 1eg7A 557 2.35e+01 1eg7A c.37.1.10 32241 1e5pA 151 2.36e+01 1bj7 b.60.1.1 59272 1csh 435 2.40e+01 1csh a.103.1.1 18880 1zrn 232 2.41e+01 1qq5A c.108.1.1 43323 1nlr 234 2.46e+01 2nlrA b.29.1.11 24345 1ldg 316 2.51e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1j7nA 776 2.55e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1j7nB 776 2.55e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1xvaA 292 2.55e+01 1xvaA c.66.1.5 34183 2nlrA 234 2.57e+01 2nlrA b.29.1.11 24344 1f83A 425 2.57e+01 1f82A d.92.1.7 40306 1ceqA 316 2.62e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1qu9A 128 2.63e+01 1qu9A d.79.1.1 39755 1qu9C 128 2.63e+01 1qu9A d.79.1.1 39757 1f15B 218 2.63e+01 1f15B b.10.1.2 23321 1ej1A 190 2.67e+01 1ejhA d.86.1.1 40144 1byrA 155 2.73e+01 1byrA d.136.1.1 41450 1hnjA 317 2.76e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1yrgA 385 2.79e+01 1yrgA c.10.1.2 30854 1hn9A 317 2.79e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1i88A 389 2.81e+01 c.95.1.2 66070 c.95.1.2 66071 1gs5A 258 2.82e+01 1exqA 154 2.82e+01 1b9dA c.55.3.2 33646 2nadA 393 2.88e+01 2nadA c.2.1.4 30090 c.23.12.1 31350 1ef8A 261 2.92e+01 1ef8A c.14.1.3 30921 1regX 122 2.98e+01 1regX d.58.27.1 39406 1aci 76 3.01e+01 1qa6A a.4.7.1 16246 1huxA 270 3.03e+01 1huxA c.55.1.5 61278 1f82A 424 3.04e+01 1f82A d.92.1.7 40307 2afgA 140 3.08e+01 1bfg b.42.1.1 25514 1ddgA 374 3.09e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1f08A 148 3.13e+01 1f08A d.89.1.2 59564 2pgd 482 3.14e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1lea 84 3.16e+01 1lea a.4.5.2 16085 1f89A 291 3.16e+01 d.160.1.1 64988 1g8oA 310 3.16e+01 1g8oA c.68.1.9 60375 1k4vA 289 3.19e+01 1jt7A 146 3.22e+01 b.42.1.1 67255 1qmhA 347 3.22e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 1fg7A 356 3.26e+01 1gewA c.67.1.1 59819 1eblB 317 3.28e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1qd1A 325 3.31e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1hi9A 274 3.42e+01 1hi9A c.99.1.1 61063 1cb2A 365 3.44e+01 1bvwA c.6.1.1 30661 1itg 166 3.45e+01 1b9dA c.55.3.2 33661 1afi 72 3.47e+01 1aw0 d.58.17.1 39339 1k1gA 131 3.48e+01 d.51.1.1 68015 1hf8A 289 3.51e+01 1hg5A a.118.10.1 19219 1d2nA 272 3.51e+01 1d2nA c.37.1.13 32428 1b5tA 275 3.55e+01 1b5tA c.1.23.1 29676 1gewA 356 3.56e+01 1gewA c.67.1.1 60470 1kum 108 3.59e+01 1kum b.3.1.1 22525 2ak3A 226 3.65e+01 1zin c.37.1.1 31892 g.41.2.1 45193 1epbA 164 3.69e+01 1epaA b.60.1.1 27126 1gm6A 175 3.69e+01 1epaA 164 3.69e+01 1epaA b.60.1.1 27128 1evfA 264 3.84e+01 1bkpA d.117.1.1 40932 1nsf 273 3.91e+01 1d2nA c.37.1.13 32429 1qqqA 264 3.92e+01 1bkpA d.117.1.1 40931 1a8y 367 3.94e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1dciA 275 3.97e+01 1dciA c.14.1.3 30918 1qg7A 67 3.97e+01 1a15A d.9.1.1 37449 1irk 306 3.99e+01 1fmk d.144.1.2 41703