# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1efvB 255 1.58e-49 1efvB c.26.2.3 31634 1efpB 252 2.69e-48 1efvB c.26.2.3 31636 1o97C 264 6.19e-42 c.26.2.3 81232 1o97D 320 1.56e-12 c.26.2.3 81233 c.31.1.2 81234 1efvA 315 8.09e-07 1efvA c.26.2.3 31633 c.31.1.2 31728 1o4vA 183 9.89e-03 1korA 400 1.52e-01 c.26.2.1 72824 d.210.1.1 72825 1a8s 273 3.43e-01 1brt c.69.1.12 34710 1ad1A 266 6.63e-01 1aj2 c.1.21.1 29668 1d2vC 466 2.07e+00 1mhlC 1mhlC 466 2.11e+00 1mhlC 1j9eA 147 2.16e+00 c.23.5.1 62756 2phh 394 2.27e+00 1pbe c.3.1.2 30353 d.16.1.2 37884 16pk 415 2.36e+00 16pk c.86.1.1 35454 1fp6A 289 2.36e+00 1cp2A c.37.1.10 32243 1g5pA 289 2.41e+00 1cp2A c.37.1.10 32253 1cxpC 466 2.52e+00 1mhlC 1cawB 184 2.54e+00 1caxB b.82.1.2 28113 1pbe 394 2.55e+00 1pbe c.3.1.2 30338 d.16.1.2 37869 1f4pA 147 2.74e+00 5nul c.23.5.1 59651 1bu5A 147 2.95e+00 5nul c.23.5.1 31155 2fx2 147 3.07e+00 1rcf c.23.5.1 31158 1uteA 313 3.23e+00 1uteA d.159.1.1 42078 1cauB 184 3.29e+00 1caxB b.82.1.2 28103 1mo0A 275 3.47e+00 c.1.1.1 79329 1k0iA 394 3.85e+00 c.3.1.2 67942 d.16.1.2 67943 1fehA 574 3.85e+00 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1gmxA 108 4.49e+00 c.46.1.3 65355 1gn0A 108 4.81e+00 c.46.1.3 65358 1bg8A 89 5.31e+00 1bg8A a.57.1.1 17925 1nipA 289 5.45e+00 1cp2A c.37.1.10 32263 1gs5A 258 6.00e+00 c.73.1.2 70395 1mnnA 340 6.01e+00 b.2.5.7 79324 1tph1 247 6.06e+00 1amk 1jmvA 141 6.10e+00 c.26.2.4 66897 1cj3A 392 6.35e+00 1pbe c.3.1.2 30347 d.16.1.2 37878 1h6zA 913 6.78e+00 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1aop 497 7.61e+00 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1dcfA 136 7.98e+00 1dcfA c.23.1.2 31124 1caxB 184 8.00e+00 1caxB b.82.1.2 28105 1jcjA 260 8.25e+00 c.1.10.1 66499 1jclA 260 8.33e+00 c.1.10.1 66501 1dj8A 89 8.50e+00 1bg8A a.57.1.1 17919 1lyxA 248 9.11e+00 c.1.1.1 78304 1e08A 371 9.55e+00 i.4.1.1 45914 1ei1A 391 9.90e+00 1aj6 d.14.1.3 37570 d.122.1.2 41104 1bgj 394 1.03e+01 1pbe c.3.1.2 30352 d.16.1.2 37883 3cd4 182 1.09e+01 1cdy b.1.1.1 19720 b.1.1.3 21659 1augA 215 1.11e+01 1a2zA c.56.4.1 33798 1jvnA 555 1.17e+01 c.1.2.1 67355 c.23.16.1 67356 1akr 147 1.17e+01 1rcf c.23.5.1 31152 1cqmA 101 1.23e+01 1ris d.58.14.1 39321 1kq4A 232 1.23e+01 d.207.1.1 68791 1dcuA 357 1.28e+01 1frpA e.7.1.1 42943 1l5xA 280 1.33e+01 c.106.1.1 77718 1km4A 247 1.37e+01 c.1.2.3 72740 1dvjC 246 1.39e+01 1dvjA c.1.2.3 28548 1k6wA 426 1.48e+01 b.92.1.2 68236 c.1.9.5 68237 1j3bA 529 1.48e+01 c.91.1.1 77071 c.109.1.1 77072 1ehyA 294 1.48e+01 1ehyA c.69.1.11 34693 1louA 101 1.56e+01 1ris d.58.14.1 39323 1dvjA 246 1.57e+01 1dvjA c.1.2.3 28546 1ris 101 1.61e+01 1ris d.58.14.1 39314 2gd1O 334 1.63e+01 1dssG c.2.1.3 29978 d.81.1.1 39893 1o26A 232 1.65e+01 1qczA 169 1.67e+01 1qczA c.23.8.1 31276 1fcjA 322 1.68e+01 1oasA c.79.1.1 35289 1mhdA 132 1.68e+01 1mhdA d.164.1.1 42175 1l4uA 176 1.69e+01 c.37.1.2 73568 1mc3A 296 1.71e+01 c.68.1.6 78943 1np7A 489 1.75e+01 a.99.1.1 80677 c.28.1.1 80678 1ct9A 553 1.85e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1cm9A 74 1.91e+01 1b3aA d.9.1.1 37405 1gd1O 334 1.93e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1zid 268 1.93e+01 1eny c.2.1.2 29911 1iqoA 88 1.94e+01 d.214.1.1 71277 1j8yF 297 1.94e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1eny 268 1.95e+01 1eny c.2.1.2 29910 1broA 277 1.98e+01 1brt c.69.1.12 34700 1kv5A 250 2.05e+01 c.1.1.1 73052 1om0A 274 2.10e+01 1b9kA 238 2.11e+01 1qtsA b.1.10.1 22315 d.105.1.1 40791 1g2qA 187 2.20e+01 c.61.1.1 65117 1kagA 173 2.20e+01 c.37.1.2 72249 1cdi 179 2.21e+01 1cdy b.1.1.1 19727 b.1.1.3 21666 1orrA 347 2.21e+01 1juk 248 2.26e+01 1a53 c.1.2.4 28567 1a8q 274 2.27e+01 1brt c.69.1.12 34702 1f76A 336 2.28e+01 c.1.4.1 76160 1iqsA 88 2.32e+01 d.214.1.1 71278 1hwtC 81 2.34e+01 1hwtC g.38.1.1 45085 h.1.3.1 45518 1tpfA 250 2.35e+01 1amk c.1.1.1 28467 1n55A 251 2.39e+01 c.1.1.1 80007 1f0kA 364 2.39e+01 1f0kA c.87.1.2 35465 1k0rA 366 2.41e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1ezvG 93 2.42e+01 1ezvG f.23.13.1 59551 1kb9H 93 2.42e+01 f.23.13.1 77323 1a53 247 2.49e+01 1a53 c.1.2.4 28564 1fxpA 267 2.59e+01 1d9eA c.1.10.4 60106 1iv3A 152 2.61e+01 d.79.5.1 76828 1ixh 321 2.62e+01 1ixh c.94.1.1 35761 2tysA 268 2.62e+01 2tysA c.1.2.4 28572 1draA 159 2.64e+01 1vdrA c.71.1.1 34831 1j5wA 298 2.65e+01 d.104.1.1 71589 1cdy 178 2.66e+01 1cdy b.1.1.1 19719 b.1.1.3 21658 1odzA 386 2.75e+01 1k4zA 159 2.75e+01 b.80.5.1 72070 1lvwA 295 2.79e+01 1hdhA 536 2.81e+01 c.76.1.2 65805 1f4tA 368 2.85e+01 1f4tA a.104.1.1 18973 1hh1A 143 2.86e+01 1gefA c.52.1.18 61036 1e5kA 201 2.94e+01 1fr9A c.68.1.8 34578 1i7wB 151 2.94e+01 1i7wB j.71.1.1 61910 1aomA 567 2.94e+01 1qksA b.70.2.1 27694 1ek4A 418 2.95e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 7timA 247 2.95e+01 1amk c.1.1.1 28457 1chuA 540 2.96e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1quqB 121 3.03e+01 1quqB b.40.4.3 25305 1pcfA 66 3.06e+01 1pcfA d.18.1.1 38142 1hfeL 421 3.08e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 2ezh 75 3.12e+01 2ezh a.4.1.2 16029 1gu7A 364 3.20e+01 1m6uA 272 3.25e+01 b.2.5.7 78706 1b56 135 3.31e+01 1hmt b.60.1.2 27183 2ezi 75 3.35e+01 2ezh a.4.1.2 16028 1thfD 253 3.40e+01 1thfD c.1.2.1 28535 1fr9A 194 3.43e+01 1fr9A c.68.1.8 34579 1pswA 348 3.43e+01 1q06A 135 3.46e+01 1dd8A 406 3.47e+01 1dd8A c.95.1.1 35932 c.95.1.1 35933 1mb3A 124 3.50e+01 c.23.1.1 78907 1gw1A 376 3.54e+01 c.1.8.3 76361 1lqtA 456 3.58e+01 c.3.1.1 74198 c.4.1.1 74199 1npdA 288 3.60e+01 c.2.1.7 80681 c.58.1.5 80682 2aop 497 3.64e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1dguA 183 3.64e+01 1dguA a.39.1.5 17333 1i1qB 192 3.65e+01 1qdlB c.23.16.1 61544 1brt 277 3.66e+01 1brt c.69.1.12 34699 3timA 250 3.70e+01 1amk c.1.1.1 28483 1amk 251 3.71e+01 1amk c.1.1.1 28503 1h5yA 253 3.71e+01 c.1.2.1 65638 1f0lA 535 3.76e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1qopA 268 3.79e+01 2tysA c.1.2.4 28570 1g9mC 185 3.93e+01 1cdy b.1.1.1 19721 b.1.1.3 21660 1igs 248 3.96e+01 1a53 c.1.2.4 28565