# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1nffA 260 7.97e-01 c.2.1.2 80457 1vyrA 364 1.21e+00 1h61A 364 1.21e+00 1oyc c.1.4.1 60657 1fuiA 591 1.44e+00 1fuiA b.43.2.1 25674 c.85.1.1 35444 1ei6A 406 1.66e+00 unknown_sccs -8436 1vypX 364 2.04e+00 1aquA 297 2.54e+00 1aquA c.37.1.5 31942 1wpoA 256 2.56e+00 1lay b.57.1.1 27012 1uuqA 440 2.72e+00 c.1.8.3 -5321 1gvoA 364 2.91e+00 c.1.4.1 76357 1jetA 517 3.59e+00 1jevA c.94.1.1 35718 1ql0A 241 3.67e+00 1qaeA d.4.1.2 37139 1gx4A 289 3.67e+00 c.68.1.9 83362 2olbA 517 3.79e+00 1jevA c.94.1.1 35721 1b6a 478 4.22e+00 1bn5 a.4.5.25 16223 d.127.1.1 41160 1bdb 277 4.26e+00 1bdb c.2.1.2 29874 1vizA 240 4.49e+00 c.1.4.1 -5212 1nf8A 207 4.62e+00 unknown_sccs 85630 1nf9A 207 5.09e+00 unknown_sccs 85631 1yacA 208 5.44e+00 1yacA unknown_sccs 31757 1s2xA 206 5.46e+00 1ftrA 296 6.55e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1f75A 249 7.44e+00 1f75A c.101.1.1 59662 1bb9 115 7.53e+00 1bb9 b.34.2.1 24554 1rkuA 206 8.06e+00 unknown_sccs -6823 1ohvA 472 8.74e+00 c.67.1.4 -8181 1pf5A 131 9.06e+00 d.79.1.1 -10368 1c3pA 375 9.07e+00 1c3pA c.42.1.2 32606 1jtvA 327 9.70e+00 c.2.1.2 84230 1fjgK 129 1.13e+01 1fjfK c.55.4.1 33733 1qsoA 149 1.14e+01 1qsmA d.108.1.1 40812 1i0hA 205 1.26e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1ix9A 205 1.26e+01 a.2.11.1 76899 d.44.1.1 76900 1bkjA 240 1.27e+01 1bkjA d.90.1.1 40243 1t7pA 698 1.39e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1fds 327 1.49e+01 1fds c.2.1.2 29838 1htjF 210 1.54e+01 1htjF a.91.1.1 61254 1qsmA 152 1.55e+01 1qsmA d.108.1.1 40808 1fsu 492 1.57e+01 1auk c.76.1.2 35032 1nnvA 110 1.59e+01 unknown_sccs -9309 1l6sA 323 1.59e+01 c.1.10.3 73627 1um0A 365 1.79e+01 1ukmB 128 1.86e+01 d.169.1.1 -11625 1ut8A 291 1.99e+01 a.60.7.1 -1036 c.120.1.2 -6675 1q8bA 105 2.11e+01 unknown_sccs -9958 1nal1 297 2.16e+01 1nal3 1uox 296 2.23e+01 1uox 1ycsB 239 2.23e+01 1ycsB b.34.2.1 24553 d.211.1.1 19155 1fkx 349 2.27e+01 1a4mA c.1.9.1 29018 1souA 194 2.33e+01 1i8jA 323 2.51e+01 1b4kA c.1.10.3 61968 1frpA 335 2.54e+01 1frpA e.7.1.1 42875 1ceo 343 2.56e+01 1ceo c.1.8.3 28808 1ur3M 319 2.56e+01 c.1.7.1 -5248 1a4mA 349 2.64e+01 1a4mA c.1.9.1 29014 1go3F 107 2.75e+01 a.60.8.2 65407 1j34B 123 2.92e+01 d.169.1.1 84049 1goiA 499 2.95e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1q7eA 428 2.95e+01 c.123.1.1 -8768 1o5iA 249 2.97e+01 c.2.1.2 -5833 1mv3A 213 3.11e+01 b.34.2.1 -3555 1fpzA 212 3.14e+01 1fpzA c.45.1.1 59976 1j57A 143 3.16e+01 d.221.1.1 77079 1e6pA 499 3.19e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1js8A 394 3.20e+01 a.86.1.1 67219 b.112.1.1 67220 1o7qA 289 3.21e+01 c.68.1.9 -8216 1nnwA 252 3.23e+01 d.159.1.5 80674 1pt7A 437 3.35e+01 c.123.1.1 -8762 1b16A 254 3.35e+01 1b16A c.2.1.2 29875 1hl2A 297 3.45e+01 c.1.10.1 83581 1k8kE 178 3.45e+01 a.148.1.1 68311 1jsdB 176 3.50e+01 h.3.1.1 63259 1oe4A 247 3.53e+01 c.18.1.3 86895 1gp6A 356 3.73e+01 b.82.2.1 65441 1icrA 217 3.74e+01 1vfrA d.90.1.1 62274 1o88A 353 3.78e+01 b.80.1.1 81178 1elkA 157 3.79e+01 1dvpA a.118.9.2 19217 1o7kA 131 3.83e+01 d.189.1.1 81144 1ii7A 333 3.84e+01 1ii7A d.159.1.4 62415 1thtA 305 3.98e+01 1thtA c.69.1.13 34711 1e9gA 286 3.99e+01 1wgjA b.40.5.1 59393