# List of top-scoring protein chains for t2k-100-40-40-str2+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.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 1tocR 120 1.83e-01 1tocR g.8.1.2 44558 g.8.1.2 44559 1ap6A 198 4.99e-01 1avmA a.2.11.1 15746 d.44.1.1 38705 1abmA 198 7.72e-01 1avmA 1hpwA 129 8.07e-01 1hpwA d.24.1.1 61118 1n0nA 199 8.20e-01 a.2.11.1 79750 d.44.1.1 79751 1ei7A 158 1.10e+00 1rmvA a.24.5.1 16584 1pl4A 198 1.13e+00 a.2.11.1 -132 d.44.1.1 -9733 1idsA 207 1.51e+00 1avmA a.2.11.1 15722 d.44.1.1 38730 1grj 158 2.02e+00 1grj a.2.1.1 15691 d.26.1.2 38433 1cmiA 85 2.18e+00 1cmiA d.39.1.1 38551 1mngA 203 3.05e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1gcb 454 3.22e+00 3gcb d.3.1.1 37034 1p7gA 222 3.44e+00 a.2.11.1 -108 d.44.1.1 -9742 1jjiA 311 3.49e+00 c.69.1.2 66766 2tmvP 158 3.63e+00 1rmvA a.24.5.1 16586 1gv3A 248 4.18e+00 a.2.11.1 70585 d.44.1.1 70586 3gcb 470 4.42e+00 3gcb d.3.1.1 37032 1p97A 114 4.44e+00 unknown_sccs -10844 1mspA 126 4.51e+00 1mspA b.1.11.2 22333 1ezvE 185 4.53e+00 1rie b.33.1.1 59548 f.23.12.1 59549 1a6r 471 5.30e+00 3gcb d.3.1.1 37033 3mspA 126 5.92e+00 1mspA b.1.11.2 22343 2bpa1 426 6.03e+00 2bpa1 1h6qA 168 6.28e+00 1h6qA b.88.1.2 60692 1ecrA 309 6.71e+00 1ecrA e.2.1.1 42678 1kkcA 221 6.84e+00 a.2.11.1 68660 d.44.1.1 68661 1lxtA 561 6.92e+00 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1apmE 350 7.09e+00 1cdkA d.144.1.7 41628 1iscA 192 7.98e+00 1avmA a.2.11.1 15733 d.44.1.1 38726 1i1dA 161 8.02e+00 1i21A d.108.1.1 61526 3pmgA 561 8.03e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1txjA 171 8.17e+00 1j1jA 240 8.87e+00 a.118.16.1 -1637 1q8uA 350 8.95e+00 d.144.1.7 -11331 1b06A 210 9.19e+00 1avmA a.2.11.1 15740 d.44.1.1 38737 1d5nA 205 9.38e+00 1avmA a.2.11.1 15762 d.44.1.1 38687 1mli 96 9.42e+00 1mli d.58.4.1 39070 1mxmA 254 9.56e+00 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1isaA 192 9.70e+00 1avmA a.2.11.1 15731 d.44.1.1 38724 1ei7B 158 9.78e+00 1rmvA a.24.5.1 16585 1fjgT 106 9.98e+00 1fjfT a.7.6.1 16338 1cmkE 350 1.01e+01 1cdkA d.144.1.7 41623 1r0pA 312 1.01e+01 d.144.1.7 -11377 1t6aA 126 1.05e+01 1lpuA 332 1.08e+01 d.144.1.7 74177 1qpcA 279 1.09e+01 1fgkA d.144.1.7 41685 1fzkA 274 1.14e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 3lck 271 1.14e+01 1fmk d.144.1.7 41686 1nt2B 258 1.18e+01 a.183.1.1 86150 1rmvA 157 1.34e+01 1rmvA a.24.5.1 16589 1qw2A 102 1.41e+01 unknown_sccs -9601 1qa4A 57 1.42e+01 1qa4A j.52.1.1 46334 1m2rA 327 1.47e+01 d.144.1.7 84760 1keoA 154 1.48e+01 b.64.1.1 68534 1dmmA 131 1.52e+01 1opy d.17.4.3 38114 1kpuA 274 1.57e+01 b.1.1.2 84456 d.19.1.1 84457 1qr0A 228 1.57e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1p9yA 121 1.61e+01 unknown_sccs -8996 1hk9A 74 1.62e+01 b.38.1.2 83541 1ea2A 131 1.62e+01 d.17.4.3 64860 1f5mB 180 1.65e+01 1f5mB d.110.2.1 40896 1opy 131 1.67e+01 1opy d.17.4.3 38113 1g7pA 274 1.67e+01 b.1.1.2 70153 d.19.1.1 70154 1cf7B 95 1.69e+01 1cf7B a.4.5.17 16152 1shsA 147 1.75e+01 1shsA b.15.1.1 23675 2nllB 103 1.76e+01 2nllB g.39.1.2 45115 1cdkA 350 1.83e+01 1cdkA d.144.1.7 41620 1rgxA 114 1.85e+01 1mwmA 320 1.91e+01 c.55.1.1 79580 c.55.1.1 79581 1d66A 66 1.97e+01 1d66A g.38.1.1 45076 h.1.3.1 45510 1keyA 235 1.98e+01 a.118.16.1 72389 1avmA 201 1.99e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1om1A 332 2.05e+01 d.144.1.7 -11318 1m6pA 152 2.06e+01 1m6pA b.64.1.1 27519 1tz9A 367 2.07e+01 1ku1A 230 2.10e+01 a.118.3.1 72996 1lk2A 274 2.13e+01 b.1.1.2 -2610 d.19.1.1 -9365 1jvwA 167 2.16e+01 d.26.1.1 71907 1nmtA 392 2.17e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1lvhA 221 2.21e+01 c.108.1.6 74282 1fzoA 274 2.29e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1g72B 69 2.29e+01 4aahB a.137.2.1 19627 1smtB 122 2.29e+01 1smtA a.4.5.5 16110 1o0pA 104 2.30e+01 d.58.7.1 86535 1qi9A 556 2.43e+01 1qhbA a.111.1.2 19053 1f5mA 180 2.44e+01 1f5mB d.110.2.1 40895 1qh7A 207 2.48e+01 1axkA b.29.1.11 24317 1ix9A 205 2.48e+01 a.2.11.1 76899 d.44.1.1 76900 1i12A 160 2.51e+01 1i21A d.108.1.1 61515 1hfoA 113 2.66e+01 d.80.1.3 61006 1b3qA 379 2.68e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1bsmA 201 2.70e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1h4gA 207 2.73e+01 b.29.1.11 70863 1lp4A 332 2.73e+01 d.144.1.7 74170 1ekgA 127 2.75e+01 1dlxA d.82.2.1 40021 1aboA 62 2.87e+01 1bbzA b.34.2.1 24474 1c8oA 300 2.89e+01 1c8oA e.1.1.1 42677 1i21A 159 3.02e+01 1i21A d.108.1.1 61549 1oh0A 131 3.04e+01 d.17.4.3 87004 1tig 94 3.09e+01 1tig d.68.1.1 39566 1qupA 222 3.13e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 1bbzE 58 3.17e+01 1bbzA b.34.2.1 24479 1di0A 158 3.18e+01 1di0A c.16.1.1 30957 1dx5I 118 3.19e+01 1dx5I g.3.11.1 44302 g.3.11.1 44303 g.3.11.1 44304 1qqhA 144 3.23e+01 1dtoA b.91.1.1 28404 1fr1A 361 3.25e+01 1gceA e.3.1.1 42734 2phlA 397 3.26e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1e50B 134 3.37e+01 2jhbA b.54.1.1 59245 1aoy 78 3.39e+01 1aoy a.4.5.3 16087 3erk 364 3.42e+01 1hcl d.144.1.7 41654 1m4uA 206 3.48e+01 g.17.1.7 78625 1i0hA 205 3.54e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1ab8A 220 3.54e+01 1azsA d.58.29.1 39414 1tfe 145 3.55e+01 1tfe d.43.1.1 38680 1vmoA 163 3.57e+01 1vmoA b.77.1.1 27974 1bbzA 58 3.62e+01 1bbzA b.34.2.1 24477 1pbv 195 3.65e+01 1pbv a.118.3.1 19179 1csn 298 3.76e+01 1csn d.144.1.7 41664 8cho 125 3.77e+01 1opy d.17.4.3 38108 1awo 62 3.77e+01 1bbzA b.34.2.1 24482 1l9vA 317 3.78e+01 d.13.2.1 73760 d.216.1.1 73761 1em2A 229 3.83e+01 1em2A d.129.3.2 41321 1jmtA 104 3.85e+01 d.58.7.3 63180 1cojA 212 3.90e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1qhlA 227 3.92e+01 1qhlA c.37.1.12 32382 1k5nA 276 3.93e+01 b.1.1.2 77266 d.19.1.1 77267 1g5tA 196 3.97e+01 1g5rA c.37.1.11 32366