# 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 1i1gA 141 1.12e-01 a.4.5.32 65982 d.58.4.2 65983 1gefA 123 1.54e-01 1gefA c.52.1.18 60465 1ipiA 123 1.57e-01 c.52.1.18 66255 1lngA 87 8.68e-01 d.201.1.1 74045 1kz7A 353 9.14e-01 a.87.1.1 73333 b.55.1.1 73334 1ixkA 315 1.20e+00 unknown_sccs -8099 1fgyA 127 1.32e+00 1faoA b.55.1.1 26976 3htsB 102 3.07e+00 2hts a.4.5.22 16175 1uiuA 502 3.64e+00 c.94.1.1 -8674 1dv0A 47 3.85e+00 1dv0A a.5.2.1 16289 1m32A 366 4.17e+00 c.67.1.3 78508 1lj9A 144 5.66e+00 a.4.5.28 78035 1k4jA 230 5.72e+00 d.108.1.3 72057 1gps 47 6.37e+00 1gpt g.3.7.5 44176 1kzfA 230 6.39e+00 d.108.1.3 73354 1d8bA 81 6.50e+00 1d8bA a.60.8.1 18094 1ngnA 155 6.76e+00 a.96.1.2 85697 1tiqA 180 6.79e+00 1tbxA 99 7.05e+00 1imuA 107 7.99e+00 d.204.1.1 66218 1okrA 123 8.66e+00 unknown_sccs -235 1f02T 66 8.91e+00 1f02T j.67.1.1 46360 1ucrA 78 8.99e+00 unknown_sccs -308 1o7kA 131 9.09e+00 d.189.1.1 81144 1dpuA 99 9.26e+00 1dpuA a.4.5.16 16150 1aoy 78 9.29e+00 1aoy a.4.5.3 16087 1ezjA 115 9.36e+00 1ezjA h.1.14.1 45638 1oglA 283 9.75e+00 unknown_sccs -1512 1gd5A 130 9.75e+00 1gd5A d.189.1.1 60439 1pil 112 9.90e+00 2pii d.58.5.1 39072 1iv8A 720 9.95e+00 b.71.1.1 76842 c.1.8.1 76843 2pii 112 1.01e+01 2pii d.58.5.1 39071 1ayoA 130 1.07e+01 1ayoA b.2.4.1 22431 1sjyA 159 1.11e+01 d.113.1.1 -10908 1f46A 140 1.17e+01 1f46A d.129.4.1 59643 1f93A 104 1.27e+01 1dcpA d.74.1.1 39688 1nipA 289 1.30e+01 1cp2A c.37.1.10 32263 1p4dA 330 1.31e+01 unknown_sccs -10522 1sfxA 109 1.31e+01 1jtkA 136 1.32e+01 c.97.1.1 71862 1r5jA 337 1.32e+01 unknown_sccs -8471 1hw1A 239 1.33e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1dchA 104 1.35e+01 1dcpA d.74.1.1 39692 1dcpA 104 1.37e+01 1dcpA d.74.1.1 39672 1hh1A 143 1.39e+01 1gefA c.52.1.18 61036 1dcoA 104 1.39e+01 1dcpA d.74.1.1 39680 1owxA 121 1.48e+01 d.58.7.1 87494 4rxn 54 1.48e+01 1rb9 g.41.5.1 45226 1fp6A 289 1.49e+01 1cp2A c.37.1.10 32243 1jjoC 261 1.50e+01 1ag6 99 1.54e+01 1plc b.6.1.1 22857 1nox 205 1.55e+01 1nox d.90.1.1 40242 1e2xA 243 1.61e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1tns 76 1.71e+01 1qpmA a.6.1.7 16228 1nrvA 105 1.74e+01 d.93.1.1 86126 1lkzA 219 1.77e+01 unknown_sccs 73991 d.58.40.1 73992 1o82A 70 1.79e+01 a.64.2.1 -1084 1f7wA 144 1.80e+01 1f46A d.129.4.1 59679 1n6zA 105 1.88e+01 unknown_sccs 85369 1g4yR 148 1.88e+01 1cll a.39.1.5 60252 1sskA 158 1.90e+01 1ks2A 219 1.93e+01 unknown_sccs 72908 d.58.40.1 72909 3cln 148 1.96e+01 1cll a.39.1.5 17286 1f47B 144 1.98e+01 1f46A d.129.4.1 59645 1ggzA 148 1.99e+01 a.39.1.5 70176 1p5hA 428 1.99e+01 c.123.1.1 87802 1qndA 123 2.08e+01 1qndA d.106.1.1 40794 1q1hA 110 2.11e+01 unknown_sccs -262 1mhyD 521 2.14e+01 1mhyD a.25.1.2 16780 1uwzA 136 2.17e+01 1g5pA 289 2.19e+01 1cp2A c.37.1.10 32253 1gr8A 412 2.21e+01 1ockA 412 2.21e+01 c.117.1.1 86802 1mhqA 148 2.25e+01 a.118.9.2 84973 1klaA 112 2.30e+01 2tgi g.17.1.2 44779 1llwA 1520 2.32e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1kafA 108 2.34e+01 d.199.1.1 68372 1aoiB 87 2.41e+01 1aoiB a.22.1.1 16470 1f4lA 551 2.54e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1cll 148 2.56e+01 1cll a.39.1.5 17263 1smtB 122 2.58e+01 1smtA a.4.5.5 16110 1gyzA 60 2.60e+01 a.144.2.1 70793 1jyoE 105 2.60e+01 d.184.1.2 67487 1rewA 114 2.61e+01 g.17.1.2 -12600 1lba 146 2.63e+01 1lba d.118.1.1 41062 1vh7A 265 2.63e+01 c.1.2.1 -5159 1krs 120 2.64e+01 1krs b.40.4.1 25256 1a17 166 2.68e+01 1a17 a.118.8.1 19206 1b7yB 785 2.68e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1c44A 123 2.74e+01 1qndA d.106.1.1 40795 1iro 54 2.75e+01 1rb9 g.41.5.1 45223 1qqtA 551 2.75e+01 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1uc8A 280 2.75e+01 unknown_sccs -6718 unknown_sccs -11230 1kq1A 77 2.80e+01 b.38.1.2 72848 1b4aA 149 2.81e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1bjt 793 2.81e+01 1bjt e.11.1.1 43249 1id3B 102 2.81e+01 a.22.1.1 66113 1fy7A 278 2.83e+01 1fy7A d.108.1.1 40817 1pfvA 551 2.89e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1jwgA 147 2.94e+01 a.118.9.2 71911 1omiA 248 2.95e+01 a.4.5.4 87079 b.82.3.3 87080 1otvA 259 2.98e+01 unknown_sccs -1915 1peeA 180 2.98e+01 1ng7A 60 3.05e+01 a.178.1.1 85671 1lmzA 187 3.26e+01 a.96.1.4 74037 3vub 101 3.28e+01 3vub b.34.6.1 24613 1jevA 517 3.33e+01 1jevA c.94.1.1 35720 1jssA 224 3.35e+01 d.129.3.2 71844 2olbA 517 3.42e+01 1jevA c.94.1.1 35721 1vj1A 363 3.43e+01 b.35.1.2 -3728 c.2.1.1 -5752 1kq6A 141 3.44e+01 d.189.1.1 -9926 1aoiF 87 3.46e+01 1aoiB a.22.1.1 16471 1hq3D 103 3.53e+01 1aoiB a.22.1.1 16464 1irsA 112 3.55e+01 1qqgA b.55.1.2 26991 1tzyD 103 3.55e+01 1o0uA 429 3.60e+01 c.118.1.1 80743 1jfiB 179 3.64e+01 1jfiB a.22.1.3 62937 1cmaA 104 3.69e+01 1cmbA unknown_sccs 17486 1ndk 155 3.69e+01 1npk d.58.6.1 39118 1fr9A 194 3.71e+01 1fr9A c.68.1.8 34579 1wdcC 156 3.76e+01 1wdcC a.39.1.5 17317 1kx5B 102 3.94e+01 a.22.1.1 77594 1jetA 517 3.95e+01 1jevA c.94.1.1 35718 1bm9A 122 3.96e+01 1bm9A a.4.5.7 16116