# List of top-scoring protein chains for t04-100-30-stride-ebghtl-scores 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 2b06A 155 6.39e-01 1amuA 563 1.10e+00 1amuA e.23.1.1 43351 1o50A 157 1.18e+00 d.37.1.1,d.37.1.1 92478,92479 1dv1A 449 1.52e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1mmvB 419 1.55e+00 d.174.1.1 91318 1om4A 422 1.91e+00 d.174.1.1 87067 1tv8A 340 2.00e+00 c.1.28.3 107352 1u1iA 392 2.32e+00 c.2.1.3,d.81.1.3 107582,107583 1np7A 489 2.64e+00 a.99.1.1,c.28.1.1 80677,80678 1n9lA 109 2.79e+00 d.110.3.6 85468 1m7vA 363 3.35e+00 d.174.1.1 78748 2bjvA 265 3.40e+00 1jqlB 140 3.75e+00 c.37.1.20 63234 1r13A 148 3.96e+00 d.169.1.1,h.1.1.1 96782,96783 1xseA 295 4.10e+00 1xu9A 286 4.63e+00 1xg5A 279 4.70e+00 1icrA 217 4.72e+00 1vfrA d.90.1.1 62274 1xneA 113 5.26e+00 1t9xA 1049 6.42e+00 1y5mA 276 7.24e+00 1yspA 181 7.73e+00 1kveB 77 9.57e+00 1kveB 2a6hC 1119 9.92e+00 2b0lA 102 1.11e+01 1rkbA 173 1.20e+01 1jnuA 104 1.28e+01 d.110.3.6 71762 1g6aA 271 1.34e+01 1btl e.3.1.1 42704 1ex1A 605 1.39e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1ykiA 217 1.46e+01 1ylnA 252 1.48e+01 1z94A 147 1.59e+01 1oshA 232 1.60e+01 a.123.1.1 93496 1xuvA 178 1.60e+01 1lrzA 426 1.72e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1w2yA 229 1.74e+01 a.204.1.1 109140 1x38A 602 1.74e+01 1qkrA 188 1.87e+01 1qkrA a.24.9.1 16628 1odfA 290 1.88e+01 c.37.1.6 92782 2gaiA 633 1.94e+01 1fds 327 1.95e+01 1fds c.2.1.2 29838 1jtvA 327 1.98e+01 c.2.1.2 84230 1zxxA 319 2.01e+01 1pfkA 320 2.06e+01 3pfk c.89.1.1 35575 2pfkA 320 2.07e+01 3pfk c.89.1.1 35577 1ekeA 230 2.07e+01 1ekeA c.55.3.1 33572 2a3qA 170 2.09e+01 2aeuA 374 2.09e+01 1g63A 181 2.10e+01 1g5qA c.34.1.1 60299 1oyeA 1049 2.11e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1fkmA 396 2.13e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1jmxB 349 2.15e+01 b.69.2.2 66906 1pbyB 337 2.19e+01 b.69.2.2 94422 1bm9A 122 2.34e+01 1bm9A a.4.5.7 16116 1p5jA 372 2.36e+01 c.79.1.1 104067 1dhr 241 2.37e+01 1dhr c.2.1.2 29832 1go4A 205 2.39e+01 d.135.1.1 70292 1v8gA 329 2.44e+01 a.46.2.1,c.27.1.1 100505,100506 1itwA 741 2.45e+01 c.77.1.2 76793 2afwA 329 2.60e+01 2cokA 113 2.78e+01 1li5A 461 2.88e+01 a.27.1.1,c.26.1.1 73912,73913 1mw9X 592 2.89e+01 e.10.1.1 91480 1iab 200 2.99e+01 1iae d.92.1.8 40312 2a6hD 1524 3.04e+01 1ykdA 398 3.13e+01 1bn7A 294 3.14e+01 1bn6A c.69.1.8 34677 1hstA 90 3.17e+01 1hstA a.4.5.13 16140 1b67A 68 3.19e+01 1a7w a.22.1.2 16474 1n3kA 130 3.20e+01 a.77.1.4 79965 1fm0D 81 3.24e+01 1fmaD d.15.3.1 37642 1iae 200 3.34e+01 1iae d.92.1.8 40311 1ps9A 671 3.44e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1xhcA 367 3.47e+01 1ev7A 317 3.53e+01 1ev7B c.52.1.9 33315 1v4pA 157 3.54e+01 1rypC 244 3.63e+01 1rypC d.153.1.4 41934 1gdoA 240 3.82e+01 1gdoA 1qunB 279 3.85e+01 b.2.3.2,b.2.3.2 22411,22412 1j5sA 463 3.93e+01 c.1.9.8 71580 1m5yA 408 3.95e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1qwgA 251 4.11e+01 c.1.27.1 96473 1u9iA 519 4.19e+01 2cu3A 64 4.20e+01 1uwfA 158 4.20e+01 1aua 296 4.21e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1okrA 123 4.22e+01 a.4.5.39 93269 1j3bA 529 4.27e+01 c.91.1.1,c.109.1.1 77071,77072 2gw6A 123 4.27e+01 1sdjA 310 4.33e+01 d.21.1.2,d.21.1.2 98807,98808 1klfB 279 4.50e+01 b.2.3.2,b.2.3.2 72684,72685 1xffA 240 4.53e+01 d.153.1.1 109580 2g03A 194 4.54e+01 1brwA 433 4.55e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1gpmA 525 4.59e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1vqvA 306 4.69e+01 1top 162 4.93e+01 1ncx a.39.1.5 17223 1bcpA 235 4.97e+01 1bcpA d.166.1.1 42255 1f60B 94 5.02e+01 1b64 d.58.12.1 39307 1qc5A 192 5.19e+01 1aoxA c.62.1.1 34147 2bvyA 475 5.20e+01 1q1fA 151 5.28e+01 a.1.1.2 104476 1molA 94 5.42e+01 1molA d.17.1.1 37988 7taa 478 5.46e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1mvwA 840 5.53e+01 i.15.1.1 79523 1nmeA 146 5.54e+01 c.17.1.1 85874 1y74A 57 5.57e+01 1wguA 136 5.57e+01 1tr7A 164 5.61e+01 2fq3A 104 5.74e+01 1msk 331 5.78e+01 1msk d.173.1.1 42495 1r9gA 216 5.81e+01 c.23.16.1 97258 1ydhA 216 5.81e+01 1pt6A 213 5.92e+01 c.62.1.1 95091 1whtB 153 5.92e+01 1whtB 1zemA 262 6.01e+01 1nofA 383 6.02e+01 b.71.1.2,c.1.8.3 92020,92021 1w7lA 422 6.03e+01 c.67.1.1 109226 1oj6A 151 6.14e+01 a.1.1.2 93088 1zr5A 214 6.20e+01 1z8sA 146 6.23e+01 1dt9A 437 6.25e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1g8kA 825 6.28e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1p3jA 217 6.36e+01 c.37.1.1,g.41.2.1 94022,94023 1whsB 153 6.41e+01 1whtB 1dqsA 393 6.41e+01 1dqsA e.22.1.1 43347 1khtA 192 6.65e+01 c.37.1.1 84401 2f6rA 281 6.76e+01 1xuuA 349 6.87e+01 2aaa 484 6.87e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1hl9A 449 6.88e+01 b.71.1.3,c.1.8.11 90650,90651 2aucA 126 6.89e+01 1nksA 194 6.97e+01 1nksA c.37.1.1 31886 1qyaA 307 7.14e+01 d.21.1.2,d.21.1.2 104653,104654 1t6sA 162 7.16e+01 1w0mA 226 7.25e+01 c.1.1.1 109027 1dvpA 220 7.25e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1iirA 415 7.34e+01 1iirA c.87.1.5 62453 2prd 174 7.35e+01 2prd b.40.5.1 25435 1qqfA 277 7.40e+01 1c3d a.102.4.4 18875 1yrvA 169 7.41e+01 1sg6A 393 7.54e+01 e.22.1.1 105522 1x92A 199 7.55e+01 1g97A 459 7.64e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1vjpA 394 7.80e+01 c.2.1.3,d.81.1.3 100828,100829 1im5A 180 7.93e+01 c.33.1.3 66211 2pspA 106 7.94e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1zip 217 7.94e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1p35A 299 7.95e+01 1p35A b.28.1.1 23925 1iqrA 420 7.98e+01 a.99.1.1,c.28.1.1 66275,66276 1v7oA 165 8.00e+01 d.67.1.2 100480 1w5tA 412 8.08e+01 1iw7C 1119 8.09e+01 e.29.1.1 71474 1t9mA 214 8.09e+01 2fu4A 83 8.11e+01 2b18A 164 8.16e+01 2a33A 215 8.16e+01 1io7A 368 8.17e+01 1f4tA a.104.1.1 18971 1oi2A 366 8.46e+01 c.119.1.2 103802 1c4rA 182 8.49e+01 1c4rA b.29.1.4 24229 1v9tA 166 8.55e+01 b.62.1.1 108451 1vicA 262 8.60e+01 c.68.1.13 100756 1u7pA 164 8.61e+01 2fuvA 549 8.65e+01 1wluA 136 8.77e+01 1io2A 213 8.78e+01 1ekeA c.55.3.1 62612 1ow4A 129 8.95e+01 a.39.2.1 93628