# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1hx6A 394 1.88e-01 1cjdA b.121.2.1 58995 b.121.2.1 58996 1s1dA 331 2.51e-01 unknown_sccs -4566 1rifA 282 4.67e-01 unknown_sccs -7265 1rypH 205 1.18e+00 d.153.1.4 41876 1fnnA 389 2.58e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1oeyA 83 2.80e+00 d.15.2.2 -9162 1o94A 729 2.84e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 2tmdA 729 2.90e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1djnA 729 2.96e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1viaA 175 3.19e+00 c.37.1.2 -7021 2gar 212 3.31e+00 2gar c.65.1.1 34161 1qtnA 164 3.64e+00 1pauA c.17.1.1 30999 1f6yA 262 3.82e+00 1f6yA c.1.21.2 29673 1evsA 187 3.83e+00 1evsA a.26.1.1 16845 1garA 212 5.41e+00 2gar c.65.1.1 34162 1f8yA 157 5.66e+00 1f8xA c.23.14.1 31395 1jhgA 101 5.80e+00 1jhgA a.4.12.1 19009 1jkxA 212 6.00e+00 c.65.1.1 66813 1jj2R 84 6.08e+00 1ffkP d.12.1.1 63103 1s72S 85 6.18e+00 1e4cP 215 6.76e+00 2fua c.74.1.1 34969 1f8rA 498 7.18e+00 1f8rA c.3.1.2 30410 d.16.1.5 37974 1m6yA 301 7.27e+00 a.60.13.1 78716 c.66.1.23 78717 1us8A 147 7.67e+00 c.37.1.12 -7194 1l6oA 95 7.68e+00 b.36.1.1 84534 1puzA 82 8.04e+00 1hcd 118 8.48e+00 1hce b.42.5.2 25624 1sqsA 242 8.48e+00 unknown_sccs -6433 1meoA 209 8.64e+00 c.65.1.1 79035 1m3uA 264 8.92e+00 c.1.12.8 84784 1k0iA 394 9.02e+00 c.3.1.2 67942 d.16.1.2 67943 1bjx 110 9.26e+00 1bjx c.47.1.2 32774 1bbhA 131 1.01e+01 1bbhA a.24.3.2 16546 1o66A 275 1.06e+01 c.1.12.8 -5590 1nz0A 118 1.10e+01 d.14.1.2 86433 1k4zA 159 1.15e+01 b.80.5.1 72070 1pfo 500 1.16e+01 1pfo f.9.1.1 43826 1auoA 218 1.18e+01 1auoA c.69.1.14 34716 1sv6A 269 1.29e+01 1dyr 206 1.29e+01 1aoeA c.71.1.1 34916 1js8A 394 1.29e+01 a.86.1.1 67219 b.112.1.1 67220 1pa7A 130 1.32e+01 a.40.1.1 -896 1jj2F 119 1.39e+01 1ffkE d.79.3.1 63091 1kb9A 431 1.42e+01 d.185.1.1 77311 d.185.1.1 77312 1to6A 371 1.44e+01 1ezvA 430 1.51e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1ukgA 252 1.65e+01 b.29.1.1 -3390 1tbxA 99 1.67e+01 1n3oA 252 1.70e+01 b.29.1.1 79967 1a8y 367 1.72e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1pbe 394 1.78e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1reoA 486 1.80e+01 c.3.1.2 -5997 d.16.1.5 -9217 3proC 166 1.81e+01 3proC d.52.1.1 38812 d.52.1.1 38813 1ijtA 128 1.87e+01 1bfg b.42.1.1 62510 1f52A 468 1.96e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1dbhA 354 1.96e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1f60B 94 2.03e+01 1b64 d.58.12.1 39307 1j3wA 163 2.06e+01 unknown_sccs -10870 8rucI 123 2.08e+01 1rboC d.73.1.1 39629 1rypC 244 2.23e+01 1rypC d.153.1.4 41934 8acn 754 2.26e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1bj7 156 2.26e+01 1bj7 b.60.1.1 27113 1vjw 60 2.38e+01 1fxd d.58.1.4 38991 1hufA 140 2.42e+01 1hufA d.195.1.1 61272 1b24A 188 2.48e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1kb9B 352 2.51e+01 d.185.1.1 77313 d.185.1.1 77314 3tmkA 216 2.52e+01 3tmkA c.37.1.1 31920 1k99A 99 2.57e+01 a.21.1.1 68341 1ip9A 85 2.59e+01 1ip9A d.15.2.2 62638 1qv1A 195 2.61e+01 a.39.1.5 -830 1xxaA 78 2.65e+01 1xxaA d.74.2.1 39700 1cr5A 189 2.66e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1us0A 316 2.73e+01 c.1.7.1 -5233 1jpmA 366 2.74e+01 c.1.11.2 67031 d.54.1.1 67032 1ldjB 90 2.90e+01 g.44.1.1 73850 1khdA 345 3.01e+01 a.46.2.1 77400 c.27.1.1 77401 1pwmA 316 3.04e+01 c.1.7.1 -5232 2btvA 901 3.05e+01 2btvA e.28.1.1 43376 1s6tA 285 3.07e+01 c.37.1.5 -7040 1vkjA 285 3.07e+01 1djxB 624 3.07e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1om0A 274 3.08e+01 c.1.8.5 87058 1fkmA 396 3.09e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1q8iA 783 3.14e+01 c.55.3.5 -7635 e.8.1.1 -11885 1mxmA 254 3.21e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1r0vA 305 3.22e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1lkkA 105 3.29e+01 1lckA d.93.1.1 40412 1mngA 203 3.29e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1bc8C 93 3.31e+01 1awcA a.4.5.21 16168 1jj2L 194 3.45e+01 1ffkI d.12.1.2 63097 1vdwA 254 3.47e+01 e.7.1.1 -11868 1gk9B 557 3.51e+01 3rubS 123 3.59e+01 1rboC d.73.1.1 39616 1s72T 120 3.60e+01 2dhqA 146 3.61e+01 2dhqA c.23.13.1 31382 1h4rA 314 3.63e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1dhn 121 3.65e+01 1dhn d.96.1.3 40663 1s2kA 206 3.65e+01 unknown_sccs -3494 1jj2S 119 3.70e+01 1ffkQ b.34.5.1 63104 1cjbA 231 3.70e+01 1qk3A c.61.1.1 34079 1m3iA 471 3.71e+01 f.9.1.1 -12374 1h05A 146 3.72e+01 c.23.13.1 76433 1r89A 437 3.76e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1lci 550 3.80e+01 1lci e.23.1.1 43349 1ohtA 215 3.82e+01 d.118.1.1 87036 1o6zA 303 3.85e+01 c.2.1.5 81107 d.162.1.1 81108 1eg9B 194 3.86e+01 1ndoB d.17.4.4 38120 1okiA 210 3.88e+01 b.11.1.1 -3030 b.11.1.1 -3031 1ezvB 352 3.89e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 2arcA 164 3.91e+01 2arcA b.82.4.1 28148 1ov9A 50 3.95e+01 a.155.1.1 -1486