# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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.soe.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 2gw8A 114 3.90e-06 2ns1B 116 6.20e-06 3bzqA 114 3.04e-05 2pii 112 3.49e-05 2pii 1gnkA 112 5.43e-05 2pii d.58.5.1 39073 2j9cA 119 8.91e-05 2eg2A 112 1.53e-04 1vfjA 116 6.40e-04 d.58.5.1 113637 2o66A 135 2.56e-03 2dclA 127 1.06e-02 1o51A 114 7.08e-02 d.58.5.4 92480 2egxA 269 1.30e+00 1pujA 282 2.04e+00 c.37.1.8 88294 3bw6A 144 2.30e+00 2a90A 240 2.42e+00 2gkgA 127 2.81e+00 1vm7A 311 4.15e+00 c.72.1.1 108884 1pud 386 4.45e+00 1pud 1pxgA 382 4.76e+00 c.1.20.1 95287 1zd9A 188 5.14e+00 c.37.1.8 124938 2cevA 299 5.21e+00 1d3vA c.42.1.1 32576 2h57A 190 5.28e+00 1r5yA 386 5.36e+00 c.1.20.1 97134 2uxyA 341 5.96e+00 2dc1A 236 6.09e+00 2dy0A 190 7.64e+00 2f46A 156 8.01e+00 2iw0A 254 8.54e+00 c.6.2.3 137737 1uayA 242 8.90e+00 c.2.1.2 88390 1ghsA 306 9.29e+00 1aq0A c.1.8.3 28840 1ulrA 88 9.90e+00 d.58.10.1 113283 1h1yA 228 1.08e+01 c.1.2.2 76506 1ae1A 273 1.12e+01 1bdb c.2.1.2 29943 1xvxA 312 1.16e+01 c.94.1.1 116097 2djiA 590 1.17e+01 c.31.1.3,c.36.1.5,c.36.1.9 131544,131545,131546 1j4aA 333 1.19e+01 c.2.1.4,c.23.12.1 71502,71503 1qp8A 303 1.20e+01 1qp8A c.2.1.4,c.23.12.1 30092,31352 2ef5A 290 1.31e+01 1zgzA 122 1.37e+01 c.23.1.1 125065 2ooxA 137 1.40e+01 6pfkA 319 1.41e+01 3pfk c.89.1.1 35583 1d3vA 323 1.42e+01 1d3vA c.42.1.1 32559 1mr3F 181 1.44e+01 c.37.1.8 79422 1em8A 147 1.45e+01 c.128.1.1 90457 3pfk 319 1.51e+01 3pfk 2ab5A 269 1.51e+01 2fcjA 119 1.54e+01 c.136.1.1 133269 1wvqA 167 1.67e+01 1h8mA 140 1.69e+01 1h8mA d.110.4.1 60782 2j97A 109 1.74e+01 1urrA 102 1.76e+01 d.58.10.1 107998 1rd5A 262 1.80e+01 c.1.2.4 111772 1dosA 358 1.86e+01 1dosA c.1.10.2 29175 2rcyA 262 1.89e+01 2gi3A 476 1.90e+01 c.117.1.1 135220 1wp1A 474 1.92e+01 f.5.1.1 114778 2bfxA 284 1.93e+01 1iicA 422 2.02e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2ha8A 184 2.24e+01 2g7uA 257 2.25e+01 2obpA 96 2.28e+01 1mq4A 272 2.33e+01 d.144.1.7 91391 2eklA 313 2.37e+01 1ja9A 274 2.50e+01 c.2.1.2 62817 1w2iA 91 2.59e+01 d.58.10.1 109127 3b9oA 440 2.59e+01 1yexA 186 2.63e+01 c.47.1.10 123021 1b7pA 130 2.65e+01 3lzt d.2.1.2 36551 1b5uA 130 2.71e+01 3lzt d.2.1.2 36453 1bb4A 130 2.73e+01 3lzt d.2.1.2 36583 1b7nA 130 2.74e+01 3lzt d.2.1.2 36468 1o63A 219 2.74e+01 c.94.1.1 92540 1b7oA 130 2.75e+01 3lzt d.2.1.2 36491 2nwdX 130 2.76e+01 d.2.1.2 138718 2pv7A 298 2.78e+01 2qrdA 137 2.78e+01 2gmgA 105 2.82e+01 1r6oC 106 2.83e+01 d.45.1.2 118738 1b7lA 130 2.96e+01 3lzt d.2.1.2 36515 2hq6A 185 2.99e+01 2bjdA 101 3.04e+01 1cqqA 180 3.04e+01 1cqqA b.47.1.4 26422 1b5xA 130 3.04e+01 3lzt d.2.1.2 36550 2iayA 114 3.05e+01 1b5zA 130 3.09e+01 3lzt d.2.1.2 36567 1ep3A 311 3.11e+01 2dorA c.1.4.1 28597 2h3lA 103 3.20e+01 b.36.1.1 136046 1lz1 130 3.25e+01 3lzt 1mfgA 95 3.27e+01 b.36.1.1 79043 2bgsA 344 3.27e+01 1b7rA 130 3.29e+01 3lzt d.2.1.2 36436 1mzjA 339 3.29e+01 c.95.1.2,c.95.1.2 79700,79701 1g8aA 227 3.33e+01 c.66.1.3 90506 1l3lA 234 3.36e+01 a.4.6.2,d.110.5.1 73541,73542 1b5yA 130 3.40e+01 3lzt d.2.1.2 36570 1ho1A 242 3.55e+01 1ho1A c.1.24.1 61097 1tv8A 340 3.56e+01 c.1.28.3 107352 2vgpA 284 3.56e+01 2aebA 322 3.63e+01 c.42.1.1 126617 1ugjA 141 3.71e+01 b.41.1.3 107826 1ng0A 253 3.72e+01 b.121.4.7 80475 1b5vA 130 3.80e+01 3lzt d.2.1.2 36563 1b7qA 130 3.82e+01 3lzt d.2.1.2 36549 1b5wA 130 3.85e+01 3lzt d.2.1.2 36557 2i1oA 398 4.02e+01 1yzgA 179 4.02e+01 c.37.1.8 124276 2h0rA 216 4.13e+01 2d42A 249 4.30e+01 1nfvA 179 4.43e+01 a.25.1.1 85642 1cc1S 283 4.46e+01 2frvA e.19.1.1 43313 2vl0A 321 4.48e+01 1b7mA 130 4.50e+01 3lzt d.2.1.2 36569 1fcqA 350 4.54e+01 c.1.8.9 65006 1bb3A 130 4.57e+01 3lzt d.2.1.2 36544 1fsuA 492 4.58e+01 c.76.1.2 35032 2gcgA 330 4.61e+01 1j5xA 342 4.64e+01 c.80.1.1 71591 1q9uA 130 4.75e+01 d.129.7.1 96314 1ecxA 384 4.76e+01 1ecxA c.67.1.3 34431 2jbhA 225 4.78e+01 2e7uA 424 4.80e+01 2fwuA 157 4.82e+01 b.1.27.1 134262 2anxA 146 4.86e+01 1gkuB 1054 4.88e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 2ae2A 260 5.10e+01 1bdb c.2.1.2 29945 2dt9A 167 5.22e+01 1vdwA 254 5.25e+01 e.7.1.1 100569 2o7oA 207 5.26e+01 a.4.1.9,a.121.1.1 138930,138931 1pt6A 213 5.34e+01 c.62.1.1 95091 2dk5A 91 5.37e+01 1oq1A 223 5.40e+01 b.29.1.17 93408 1lmqA 129 5.43e+01 d.2.1.2 36588 1s3qA 173 5.59e+01 a.25.1.1 118848 1hurA 180 5.71e+01 1hurA c.37.1.8 32052 2id1A 130 5.76e+01 1m2oB 190 5.77e+01 c.37.1.8 78485 1cnv 299 5.90e+01 1cnv 1cnvA 299 5.90e+01 c.1.8.5 28989 1wduA 245 5.98e+01 d.151.1.1 109286 2ghpA 292 5.99e+01 d.58.7.1,d.58.7.1,d.58.7.1 135184,135185,135186 1lba 146 6.07e+01 1lba 1lbaA 146 6.07e+01 d.118.1.1 41062 1lvl 458 6.10e+01 1lvl 1lvlA 458 6.10e+01 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1dqnA 230 6.22e+01 1dqnA c.61.1.1 34067 2a4kA 263 6.32e+01 c.2.1.2 126156 1zud1 251 6.41e+01 2jwhA 48 6.47e+01 2grjA 192 6.48e+01 2aamA 309 6.50e+01 c.1.8.15 126489 1xccA 220 6.50e+01 c.47.1.10 115113 1lngA 87 6.50e+01 d.201.1.1 74045 1vp2A 208 6.51e+01 c.51.4.1 113933 1oo0B 110 6.71e+01 d.58.7.1 87183 1oltA 457 6.82e+01 c.1.28.2 93334 1dq3A 454 6.88e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2o5cA 659 6.96e+01 8abp 306 6.97e+01 8abp 8abpA 306 6.97e+01 c.93.1.1 35647 1jv2A 957 7.02e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1ug6A 431 7.07e+01 c.1.8.4 88490 1wexA 104 7.09e+01 d.58.7.1 114568 1vheA 373 7.11e+01 b.49.3.1,c.56.5.4 100669,100670 2ggoA 401 7.12e+01 1z7gA 217 7.12e+01 c.61.1.1 124624 2q4oA 215 7.17e+01 c.129.1.1 139872 1zjjA 263 7.24e+01 1dqpA 230 7.31e+01 1dqnA c.61.1.1 34069 1skyB 502 7.34e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1no5A 114 7.36e+01 d.218.1.5 92014 2g1iA 563 7.38e+01 2rjnA 154 7.44e+01 2nygA 273 7.44e+01 2e5iA 124 7.48e+01 1iu8A 206 7.54e+01 c.56.4.1 71436 1wwkA 307 7.55e+01 2eixA 243 7.56e+01 1nhp 447 7.58e+01 1nhp 1nhpA 447 7.58e+01 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1cn3F 29 7.63e+01 1nhsA 447 7.65e+01 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1cquA 56 7.76e+01 d.100.1.1 70073 2nwvA 114 7.78e+01 d.326.1.1 138720 1ukvY 206 7.92e+01 c.37.1.8 107918 1tkjA 284 7.95e+01 c.56.5.4 119296