# 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 1pd21 199 8.96e-07 1pd21 1iyhA 198 1.60e-06 a.45.1.1 83790 c.47.1.5 83791 1gulA 222 1.43e-05 1pgtA a.45.1.1 17675 c.47.1.5 32969 1gumA 222 1.98e-05 1pgtA a.45.1.1 17683 c.47.1.5 32977 1oktA 211 5.67e-05 a.45.1.1 -942 c.47.1.5 -7467 1f3aA 222 6.90e-04 1pgtA a.45.1.1 17701 c.47.1.5 32995 2gsq 202 1.13e-03 1pd21 a.45.1.1 17715 c.47.1.5 33009 1k3yA 221 1.40e-03 a.45.1.1 77245 c.47.1.5 77246 1k3lA 221 1.65e-03 a.45.1.1 77229 c.47.1.5 77230 6gsvA 217 1.81e-03 1b8xA a.45.1.1 17633 c.47.1.5 32925 1gseA 221 2.00e-03 1pgtA a.45.1.1 17667 c.47.1.5 32961 1pgtA 210 2.63e-03 1pgtA a.45.1.1 17515 c.47.1.5 32809 1m0uA 249 2.37e-02 a.45.1.1 78359 c.47.1.5 78360 1b4pA 217 2.83e-02 a.45.1.1 83158 c.47.1.5 83159 1oe8A 211 7.88e-02 a.45.1.1 86905 c.47.1.5 86906 1b8xA 280 1.70e-01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1aw9 216 2.21e-01 1gnwA a.45.1.1 17736 c.47.1.5 33030 1dugA 234 3.24e-01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1oatA 439 7.18e-01 2dkb c.67.1.4 34461 2oatA 439 8.28e-01 2dkb c.67.1.4 34452 1nhyA 219 9.21e-01 a.45.1.1 80520 c.47.1.5 80521 1e6bA 221 9.74e-01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1fxxA 482 1.06e+00 1fxxA c.55.3.5 33726 1fpxA 352 1.53e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1f47B 144 1.64e+00 1f46A d.129.4.1 59645 1fp2A 352 2.08e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1f46A 140 2.15e+00 1f46A d.129.4.1 59643 1msk 331 2.49e+00 1msk d.173.1.1 42495 1f7wA 144 2.66e+00 1f46A d.129.4.1 59679 1ezfA 340 3.36e+00 1ezfA a.128.1.2 19440 1r2rA 248 4.15e+00 c.1.1.1 -5147 1shsA 147 4.77e+00 1shsA b.15.1.1 23675 1gwcA 230 5.40e+00 a.45.1.1 70660 c.47.1.5 70661 1ftpA 133 6.65e+00 1hmt b.60.1.2 27199 1f9aA 168 7.55e+00 1f9aA c.26.1.3 31602 1ehyA 294 8.56e+00 1ehyA c.69.1.11 34693 1wdcC 156 8.93e+00 1wdcC a.39.1.5 17317 1nwwA 149 9.86e+00 d.17.4.8 86306 1mgrA 99 1.03e+01 d.1.1.2 79106 1bjz 207 1.14e+01 2tct a.4.1.9 16065 a.121.1.1 19242 1qz9A 416 1.16e+01 c.67.1.3 -8180 1ikoP 178 1.24e+01 b.6.1.5 71243 1jlvA 209 1.25e+01 a.45.1.1 71729 c.47.1.5 71730 1iweA 457 1.37e+01 c.37.1.10 71486 1pnkA 209 1.38e+01 1ajqA d.153.1.2 41839 1ge9A 184 1.50e+01 1dd5A d.67.3.1 60463 1gm7A 209 1.54e+01 d.153.1.2 65302 1f2eA 201 1.56e+01 1a0fA a.45.1.1 17745 c.47.1.5 33039 1ai7A 209 1.59e+01 1ajqA d.153.1.2 41845 1ajqA 209 1.59e+01 1ajqA d.153.1.2 41840 1ky9A 448 1.61e+01 b.36.1.4 73198 b.47.1.1 73199 1okrA 123 1.78e+01 unknown_sccs -235 1div 149 1.81e+01 1div d.99.1.1 40692 d.100.1.1 40693 1kqwA 134 1.88e+01 b.60.1.2 72887 1ubpA 101 2.02e+01 1ubpA d.8.1.1 37353 1fxlA 167 2.05e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1qjoA 80 2.12e+01 1iyu b.84.1.1 28229 1kv8A 216 2.14e+01 c.1.2.3 73054 1fzdA 201 2.16e+01 3fib d.171.1.1 42484 1jg5A 83 2.19e+01 d.205.1.1 66666 1q6oA 216 2.20e+01 c.1.2.3 -5162 1nw2A 105 2.24e+01 c.47.1.1 -7380 1is8K 84 2.29e+01 d.205.1.1 66331 2tct 207 2.30e+01 2tct a.4.1.9 16063 a.121.1.1 19240 4ubpA 101 2.33e+01 1ubpA d.8.1.1 37352 1dwnA 127 2.38e+01 1dwnA d.85.1.1 40141 1pba 81 2.42e+01 1pytA d.58.3.1 39067 1s8iA 121 2.46e+01 a.133.1.2 -1968 1fgkA 310 2.56e+01 1fgkA d.144.1.7 41693 1xpa 122 2.58e+01 1xpa a.6.1.2 16308 g.39.1.5 45151 1gnd 447 2.78e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1c3wA 222 2.87e+01 1c3wA f.13.1.1 43405 1opaA 135 2.92e+01 1hmt b.60.1.2 27214 1qlaB 239 3.02e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1poiB 260 3.03e+01 1poiB unknown_sccs 34155 1qk3A 233 3.06e+01 1qk3A c.61.1.1 34031 1pfvA 551 3.20e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1ppa 121 3.20e+01 1poa a.133.1.2 19550 1gqeA 365 3.30e+01 e.38.1.1 70351 1opbA 135 3.38e+01 1hmt b.60.1.2 27216 1f4lA 551 3.54e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1nd6A 354 3.68e+01 c.60.1.2 80407 1fpqA 372 3.69e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1qtwA 285 3.73e+01 1qumA c.1.15.1 29392 1k7yA 577 3.73e+01 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 487dL 133 3.76e+01 1mmsA i.1.1.2 45839 1mmsA 140 3.79e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1eh2 106 3.85e+01 1eh2 a.39.1.6 17339 1qo7A 394 3.89e+01 1qo7A c.69.1.11 34697 1ry9A 145 3.96e+01 d.198.1.1 -9020