# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2gaeA 346 1.33e-01 2ae0X 345 1.81e-01 2c3mA 1231 3.01e+00 1kekA 1231 3.24e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1b0pA 1231 3.31e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 2ghsA 326 4.00e+00 1n67A 359 5.34e+00 b.2.3.4,b.2.3.4 85354,85355 1grvB 182 5.55e+00 c.61.1.1 76322 2g5dA 422 5.83e+00 1msaA 109 6.48e+00 1b2pA b.78.1.1 27987 1rhfA 182 6.59e+00 b.1.1.1,b.1.1.4 97469,97470 1jpc 109 7.56e+00 1b2pA b.78.1.1 27986 1g0uI 205 7.61e+00 d.153.1.4 41891 1rocA 155 8.20e+00 b.1.22.1 97673 1bmv1 198 8.40e+00 1bmv1 1rypJ 204 8.49e+00 d.153.1.4 41878 1v1qA 134 8.65e+00 1pgl1 185 9.75e+00 1sqrA 95 1.02e+01 2fnbA 95 1.06e+01 2fnbA b.1.2.1 21979 1itcA 516 1.08e+01 b.3.1.1,c.1.8.1 83705,83706 1sgjA 284 1.29e+01 c.1.12.5 105535 2cwzA 141 1.34e+01 1a97A 148 1.53e+01 1nulA c.61.1.1 34023 1h9sA 140 1.62e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1wi1A 126 1.64e+01 1hxmA 229 1.75e+01 1hxmA b.1.1.1,b.1.1.2 61367,61368 1nulA 152 1.82e+01 1nulA c.61.1.1 34011 1edhA 226 1.93e+01 1edhA b.1.6.1,b.1.6.1 22198,22199 1g0u1 266 2.04e+01 1wocA 103 2.14e+01 1vjhA 122 2.28e+01 d.129.3.1 100811 1i0lA 221 2.39e+01 c.61.1.1 71096 1gvuA 329 2.45e+01 b.50.1.2 70619 1oewA 329 2.53e+01 b.50.1.2 86924 1qciA 262 2.55e+01 1qi7A d.165.1.1 42201 1tyyA 339 2.57e+01 1y0bA 197 2.62e+01 1b9mA 265 2.65e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 5bcaA 516 2.65e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1vemA 516 2.66e+01 1b9zA 516 2.66e+01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1miuA 738 2.66e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1v04A 355 2.67e+01 b.68.6.2 100240 1kmvA 186 2.68e+01 c.71.1.1 72757 8dfr 189 3.06e+01 1aoeA c.71.1.1 34895 1wucA 250 3.18e+01 2er7E 330 3.26e+01 2er7E b.50.1.2 26779 1jjhA 86 3.30e+01 2bopA d.58.8.1 63119 1uheA 97 3.30e+01 1ryp2 233 3.31e+01 1ryp2 1epnE 330 3.35e+01 2er7E b.50.1.2 26780 1ef1A 294 3.38e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1s5uA 138 3.48e+01 d.38.1.1 98573 1z5hA 780 3.53e+01 1txyA 104 3.57e+01 1qjvA 342 3.77e+01 1qjvA b.80.1.5 28035 1cqyA 99 3.79e+01 1b9zA b.3.1.1 22527 1aw8B 91 3.86e+01 1aw8B 5er2E 330 3.89e+01 2er7E b.50.1.2 26783 1a7qH 116 3.89e+01 1gc1H b.1.1.1 19955 1tc6A 236 4.02e+01 d.122.1.1 106756 1f3rB 257 4.11e+01 1f3rB b.1.1.1,b.1.1.1 20416,20417 1qy5A 269 4.23e+01 d.122.1.1 96573 1vr8A 142 4.28e+01 1who 96 4.60e+01 1who b.7.3.1 23215 1amoA 615 4.90e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1pt1A 143 4.92e+01 b.52.2.1 95084 1byfA 125 5.02e+01 1byfA d.169.1.1 42419 1tlgA 125 5.02e+01 1byfA d.169.1.1 42421 1aoeA 192 5.02e+01 1aoeA c.71.1.1 34923 1d6aB 262 5.04e+01 1qi7A d.165.1.1 42198 2pth 193 5.09e+01 2pth c.56.3.1 33793 1g2rA 100 5.12e+01 1g2rA d.192.1.1 60231 1o54A 277 5.50e+01 c.66.1.13 92482 1aw8E 91 5.54e+01 1aw8B 1be9A 119 5.72e+01 1pdr b.36.1.1 24774 2aukA 190 5.89e+01 3fib 249 6.01e+01 3fib d.171.1.1 42455 1pqhA 143 6.21e+01 b.52.2.1 95017 1kn0A 212 6.23e+01 d.50.1.3 77444 1n99A 166 6.28e+01 b.36.1.1,b.36.1.1 85459,85460 1b0uA 262 6.43e+01 1b0uA c.37.1.12 32370 1nvpD 108 6.58e+01 a.32.1.1,b.56.1.1 92213,92214 1a34A 159 6.67e+01 1a34A b.121.7.1 23286 1cvjA 190 6.78e+01 1cvjB d.58.7.1,d.58.7.1 39191,39192 1vc3B 97 6.85e+01 2fibA 269 6.90e+01 3fib d.171.1.1 42457 1zboA 210 6.93e+01 1h8uA 117 7.03e+01 1h8uA d.169.1.1 60793 1fib 269 7.04e+01 3fib d.171.1.1 42456 1cnuA 137 7.11e+01 1cof d.109.1.2 40862 1aly 146 7.18e+01 1aly b.22.1.1 23856 1g2qA 187 7.20e+01 c.61.1.1 65117 1jayA 212 7.29e+01 c.2.1.6 66478 2napA 723 7.50e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1xyfA 436 7.68e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1zd0A 150 7.74e+01 1tqyB 415 7.75e+01 c.95.1.1,c.95.1.1 107247,107248 1lepA 99 7.84e+01 1lepA b.35.1.1 24649 1ja1A 622 7.88e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1l2tA 235 7.90e+01 c.37.1.12 73514 1ti6B 274 7.94e+01 b.3.5.1,d.58.1.5 106976,106977 1bfeA 119 7.94e+01 1pdr b.36.1.1 24775 1l3iA 192 7.96e+01 c.66.1.22 77676 1ksgB 152 8.36e+01 b.1.18.8 72913 1pdr 99 8.36e+01 1pdr b.36.1.1 24771 1grj 158 8.58e+01 1grj a.2.1.1,d.26.1.2 15691,38433 2gw6A 123 8.63e+01 1n62B 809 8.64e+01 d.41.1.1,d.133.1.1 80092,80093 1jaxA 212 8.74e+01 c.2.1.6 66476 1a8d 452 8.92e+01 1a8d b.29.1.6,b.42.4.2 24262,25607