# List of top-scoring protein chains for t2k-100-30-alpha 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 1fr7A 260 3.39e-01 2cba b.74.1.1 27828 1caj 260 6.32e-01 2cba b.74.1.1 27841 2cba 260 7.23e-01 2cba b.74.1.1 27821 1a0cA 438 8.89e-01 1a0cA c.1.15.3 29529 1k3bB 164 1.40e+00 1qeyA 31 1.62e+00 1qeyA h.2.1.1 45666 1tdj 514 2.15e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 2liv 344 2.72e+00 2liv c.93.1.1 35708 1ffkI 194 3.25e+00 1ffkI d.12.1.2 37494 1fiqC 763 3.69e+00 1fiqC d.41.1.1 38588 d.133.1.1 41418 1tph1 247 4.44e+00 1amk 1szt 68 4.62e+00 1aikN h.3.2.1 45725 1ordA 730 5.55e+00 1ordA c.23.7.1 31274 c.67.1.5 34503 d.125.1.1 41124 1qsmA 152 5.58e+00 1qsmA d.108.1.1 40808 1fo4A 1332 5.67e+00 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1tyv 542 7.82e+00 1tyv b.80.1.6 28038 1b9mA 265 8.47e+00 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1c4kA 730 1.01e+01 1ordA c.23.7.1 31273 c.67.1.5 34502 d.125.1.1 41123 1dixA 208 1.04e+01 1bk7A d.124.1.1 41122 1guxB 152 1.04e+01 1guxB a.74.1.3 18389 1eg3A 261 1.06e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1d2kA 392 1.21e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1tsp 559 1.24e+01 1tyv b.80.1.6 28044 1gmeA 151 1.25e+01 b.15.1.1 65305 1mml 265 1.28e+01 1mml e.8.1.2 43015 1bqv 110 1.31e+01 1bqv a.60.1.1 17932 1cdwA 179 1.33e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1i9sA 210 1.37e+01 1i9sA c.45.1.1 62099 1qq1A 559 1.39e+01 1tyv b.80.1.6 28041 1qa1A 554 1.39e+01 1tyv b.80.1.6 28047 1whi 122 1.39e+01 1whi b.39.1.1 24810 1atiB 505 1.40e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1i27A 73 1.41e+01 1i27A a.4.5.30 61555 7fd1A 106 1.46e+01 1a6l d.58.1.2 38953 1hbzA 498 1.52e+01 1cf9A e.5.1.1 60937 1im4A 221 1.55e+01 e.8.1.5 62581 1lbu 213 1.57e+01 1lbu a.20.1.1 16416 d.65.1.1 39549 1gr0A 367 1.61e+01 1fdd 106 1.62e+01 1a6l d.58.1.2 38960 1fd2 106 1.67e+01 1a6l d.58.1.2 38962 1atiA 505 1.68e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1bea 127 1.81e+01 1bea a.52.1.2 17826 2rhe 114 1.86e+01 8fabA b.1.1.1 20523 1tyu 543 2.00e+01 1tyv b.80.1.6 28037 1fcyA 236 2.03e+01 2lbd a.123.1.1 19282 1ivyA 452 2.05e+01 1ivyA c.69.1.5 34654 1e0cA 271 2.07e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 2lbd 267 2.08e+01 2lbd a.123.1.1 19287 1exzA 141 2.10e+01 1exzA a.26.1.2 16877 1ytfB 53 2.21e+01 1ytfB a.32.1.1 16997 1mkp 144 2.35e+01 1vhrA c.45.1.1 32654 2occH 85 2.37e+01 2occH a.51.1.1 17796 1cvjB 190 2.40e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1a6l 106 2.43e+01 1a6l d.58.1.2 38966 1jj2L 194 2.59e+01 1ffkI d.12.1.2 63097 3ygsP 97 2.66e+01 3ygsP a.77.1.1 18435 1efvA 315 2.71e+01 1efvA c.29.1.1 31633 c.31.1.2 31728 2lbp 346 2.73e+01 2liv c.93.1.1 35709 2fua 215 2.78e+01 2fua c.74.1.1 34977 1fua 215 2.78e+01 2fua c.74.1.1 34973 1psrA 100 2.88e+01 1psrA a.39.1.2 17180 1ygs 234 2.89e+01 1ygs b.26.1.1 23907 1e4cP 215 2.93e+01 2fua c.74.1.1 34969 1bob 320 2.94e+01 1bob d.108.1.1 40816 1dk8A 147 2.95e+01 1agrE a.91.1.1 18548 1xxaA 78 3.01e+01 1xxaA d.74.2.1 39700 1cezA 883 3.04e+01 1cezA e.8.1.3 43110 1l0oA 150 3.06e+01 4lbd 267 3.07e+01 2lbd a.123.1.1 19289 1h77A 605 3.08e+01 1gpc 218 3.14e+01 1gpc b.40.4.7 25393 1ewxA 146 3.23e+01 1ewxA c.47.1.10 33062 1scfA 273 3.37e+01 1exzA a.26.1.2 16873 1fjgD 209 3.42e+01 1c05A d.66.1.2 39553 1g7oA 215 3.46e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1pfkA 320 3.49e+01 3pfk c.89.1.1 35575 1cbs 137 3.53e+01 1hmt b.60.1.2 27201 1dmhA 311 3.55e+01 1dmhA b.3.6.1 22633 1hxmD 242 3.58e+01 b.1.1.1 61373 b.1.1.2 61374 1qlnA 883 3.59e+01 1cezA e.8.1.3 43111 1lq7A 67 3.70e+01 1gab 53 3.71e+01 1gab a.8.1.2 16353 1pdnC 128 3.75e+01 6paxA a.4.1.5 16047 1df4A 68 3.77e+01 1aikN h.3.2.1 45719 1gxjA 186 3.83e+01 1auz 116 3.87e+01 1auz c.13.2.1 30883 1ak7 174 3.98e+01 1cof d.109.1.2 40864