# List of top-scoring protein chains for t2k-100-30-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 1qynA 153 1.45e+00 d.33.1.1 96597 1sra 151 1.60e+00 1sra a.39.1.3 17190 1mm4A 170 2.06e+00 f.4.1.2 79294 1vqoE 178 2.33e+00 1jj2E 177 2.67e+00 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1s72E 178 2.89e+00 d.141.1.1,d.141.1.1 105323,105324 1fcyA 236 4.27e+00 2lbd a.123.1.1 19282 1y9wA 140 4.53e+00 4lbd 267 4.76e+00 2lbd a.123.1.1 19289 1fx3A 169 4.76e+00 1fx3B d.33.1.1 38524 1m0qA 433 5.80e+00 c.67.1.4 78350 2dkb 433 6.45e+00 2dkb c.67.1.4 34438 2lbd 267 7.80e+00 2lbd a.123.1.1 19287 1ttuA 477 8.13e+00 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1dytA 133 8.56e+00 7rsa d.5.1.1 37288 1ffk1 177 8.82e+00 1ffk1 1nnwA 252 9.50e+00 d.159.1.5 80674 2giyA 191 9.56e+00 1ia9A 280 1.09e+01 1ia9A d.144.1.5 62113 1qmtA 134 1.09e+01 7rsa d.5.1.1 37290 1w8xP 117 1.12e+01 1h1hA 134 1.20e+01 d.5.1.1 76468 1o60A 292 1.27e+01 c.1.10.4 92532 2acvA 463 1.29e+01 1om2A 95 1.30e+01 1om2A a.23.4.1 16520 1dceA 567 1.34e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1fx3B 169 1.34e+01 1fx3B d.33.1.1 38525 1wijA 140 1.68e+01 1mugA 168 1.68e+01 1mugA c.18.1.2 31030 1gy7A 125 1.86e+01 d.17.4.2 70738 1d7uA 433 2.05e+01 2dkb c.67.1.4 34439 1bndB 119 2.16e+01 1bndA g.17.1.3 44794 1wgeA 83 2.32e+01 1fl1A 230 2.42e+01 1at3A b.57.1.1 27023 1h6qA 168 2.46e+01 1h6qA b.88.1.2 60692 1twfC 318 2.51e+01 1wt4A 73 2.55e+01 1g0sA 209 2.69e+01 1g0sA d.113.1.1 60187 1jjoC 261 2.75e+01 1ud0A 113 2.78e+01 a.8.4.1 99198 1dugA 234 2.96e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1eo9B 241 2.98e+01 3pchM b.3.6.1 22826 1g33A 73 3.11e+01 a.39.1.4 65121 1v7rA 186 3.12e+01 c.51.4.1 100482 1g5aA 628 3.13e+01 b.71.1.1,c.1.8.1 65152,65153 2kaiA 80 3.15e+01 2pkaA b.47.1.2 26306 1be9A 119 3.25e+01 1pdr b.36.1.1 24774 4rxn 54 3.28e+01 1rb9 g.41.5.1 45226 1vhrA 184 3.33e+01 1vhrA c.45.1.1 32651 5rxn 54 3.44e+01 1rb9 g.41.5.1 45225 2daxA 152 3.49e+01 1g7dA 106 3.52e+01 1g7dA a.71.1.1 18318 1m13A 316 3.56e+01 a.123.1.1 84746 1ezvI 55 3.63e+01 1be3J f.23.14.1 59553 1kb9I 55 3.63e+01 f.23.14.1 77324 1zupA 315 3.70e+01 1xdwA 331 3.90e+01 1ueoA 63 3.91e+01 j.107.1.1 99269 2pkaA 80 4.00e+01 2pkaA b.47.1.2 26302 1okrA 123 4.04e+01 a.4.5.39 93269 1vp4A 425 4.53e+01 1gw5S 142 4.64e+01 d.110.4.2 70633 2gupA 292 4.73e+01 1rb9 53 4.74e+01 1rb9 g.41.5.1 45214 1j54A 186 4.78e+01 c.55.3.5 77077 1exzA 141 4.80e+01 1exzA a.26.1.2 16877 1i50C 318 4.93e+01 d.74.3.1,d.181.1.1 61756,61757 1iw0A 215 5.27e+01 a.132.1.1 83720 1souA 194 5.43e+01 c.124.1.6 105858 1rwyA 109 5.47e+01 a.39.1.4 98002 1rdg 53 5.51e+01 1rb9 g.41.5.1 45221 1ffkV 143 5.62e+01 1ffkV c.9.2.1 30849 1nrlA 316 5.66e+01 a.123.1.1 92091 1g8eA 116 5.67e+01 1g8eA a.145.1.1 60346 1ku0A 388 5.79e+01 c.69.1.18 72994 1eteA 134 5.83e+01 1eteA a.26.1.2 16869 1gk9A 260 5.87e+01 d.153.1.2 65246 1uzmA 247 5.95e+01 1xs0A 136 5.97e+01 1p7gA 222 5.99e+01 a.2.11.1,d.44.1.1 94223,94224 8rxnA 52 6.10e+01 1rb9 g.41.5.1 45215 2gtsA 86 6.14e+01 1xvjA 109 6.19e+01 2fftA 84 6.31e+01 1vz6A 393 6.33e+01 d.154.1.2 108949 1tp5A 119 6.37e+01 1vr5A 547 6.39e+01 1eijA 80 6.77e+01 1eijA a.5.6.1 16298 1zgmA 248 6.84e+01 1l8dA 112 6.90e+01 h.4.12.1 73687 1xpa 122 6.91e+01 1xpa a.6.1.2,g.39.1.5 16308,45151 2gf6A 135 6.92e+01 2fnoA 248 6.93e+01 1wpbA 172 6.94e+01 2gsfA 373 7.02e+01 1ohzB 60 7.05e+01 a.139.1.1 93044 1p94A 76 7.11e+01 a.43.1.3 94380 1vpdA 299 7.20e+01 1q16A 1247 7.29e+01 b.52.2.2,c.81.1.1 95546,95547 1xjdA 345 7.50e+01 4ubpB 126 8.06e+01 1ubpB b.85.3.1 28345 1wlxA 129 8.23e+01 2bopA 85 8.24e+01 2bopA d.58.8.1 39217 1dbdA 100 8.26e+01 2bopA d.58.8.1 39218 1tmcA 175 8.51e+01 1agdA d.19.1.1 38258 1gpqA 135 8.53e+01 d.233.1.1 83295 2ch8A 201 8.61e+01 1fjhA 257 8.69e+01 1fjhB c.2.1.2 29870 1h7sA 365 8.70e+01 d.14.1.3,d.122.1.2 65705,65706 1tvgA 153 8.76e+01 1r5jA 337 8.88e+01 c.77.1.5 97097