# List of top-scoring protein chains for T0588.t2k-w0.5 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.soe.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 1qazA 351 2.85e-16 1qazA a.102.3.1 18848 3ew4A 353 7.69e-16 3evhA 353 1.77e-15 3e7jA 749 6.22e-02 2fuqA 747 1.05e-01 2futA 748 1.05e-01 3e80A 749 1.05e-01 1yo8A 634 2.56e+00 2rhpA 622 3.53e+00 1iiuA 174 3.77e+00 b.60.1.1 66151 1clcA 639 3.93e+00 a.102.1.2,b.1.18.2 18835,21872 2wtgA 159 6.36e+00 2rd3A 223 6.52e+00 3ibxA 221 7.31e+00 3mavA 395 8.66e+00 3ez3A 396 8.67e+00 2iqhA 499 8.93e+00 e.75.1.1 147774 2pz0A 252 9.15e+00 2d40A 354 9.38e+00 b.82.1.23 146454 1h4rA 314 1.02e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 2hhlA 195 1.05e+01 1itzA 675 1.07e+01 c.36.1.10,c.36.1.6,c.48.1.1 76797,76798,76799 2q06A 504 1.09e+01 1z02A 446 1.17e+01 2w2qE 107 1.20e+01 1mdmB 161 1.23e+01 a.4.5.21 79012 2w2nE 107 1.26e+01 3c7aA 404 1.31e+01 2cqrA 73 1.33e+01 a.4.1.3 130729 3b81A 203 1.39e+01 2re3A 194 1.39e+01 2nnyA 171 1.41e+01 2fokA 579 1.43e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1fokA 576 1.55e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325 3gcwE 83 1.60e+01 1ytmA 532 1.65e+01 3bpsE 83 1.66e+01 g.3.11.1 155489 3cgzA 157 1.68e+01 1isnA 323 1.69e+01 a.11.2.1,b.55.1.5,d.15.1.4 71400,71401,71402 2auvA 85 1.74e+01 2f7sA 217 1.89e+01 c.37.1.8 133104 1jmyA 522 1.91e+01 c.69.1.1 63182 3b7hA 78 1.92e+01 1f6wA 533 1.95e+01 2bce c.69.1.1 34629 3fz0A 360 1.96e+01 2h0dA 97 2.15e+01 2cklA 108 2.26e+01 3d5nA 197 2.37e+01 1nxcA 478 2.50e+01 a.102.2.1 92293 1bxsA 501 2.56e+01 1bpwA c.82.1.1 35357 3e5mA 299 2.59e+01 2exxA 306 2.59e+01 1hj7A 80 2.60e+01 1emn g.3.11.1,g.3.11.1 61071,61072 1hz8A 82 2.61e+01 1i0uA g.3.11.1,g.3.11.1 61432,61433 2wm3A 299 2.62e+01 1cv8A 174 2.71e+01 d.3.1.1 37089 3dxfA 299 3.04e+01 1wekA 217 3.10e+01 c.129.1.1 114553 3hxoA 209 3.20e+01 1sq0A 214 3.23e+01 c.62.1.1 98959 3gbvA 304 3.23e+01 1auqA 208 3.26e+01 c.62.1.1 34137 1tf4A 605 3.27e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1suiA 247 3.28e+01 c.66.1.1 119049 1wuoA 228 3.48e+01 3h55A 400 3.52e+01 1wupA 228 3.58e+01 3dsnB 149 3.77e+01 1jjeA 222 3.85e+01 1a7tA d.157.1.1 63117 1ddkA 220 3.85e+01 1a7tA d.157.1.1 42056 1jjtA 228 3.85e+01 1a7tA d.157.1.1 63139 1nksA 194 3.86e+01 1nksA c.37.1.1 31886 3kbcA 425 3.87e+01 2nwwA 422 3.97e+01 f.49.1.1 138721 1phzA 429 3.98e+01 4pah d.58.18.3,d.178.1.1 39358,42583 2p0wA 324 3.99e+01 2nwlA 422 4.02e+01 1ijbA 202 4.02e+01 c.62.1.1 71229 1p5vB 147 4.05e+01 b.2.3.2 87814 1oakA 196 4.07e+01 1auq c.62.1.1 34138 3dosB 149 4.10e+01 3dfgA 162 4.29e+01 2ijqA 161 4.35e+01 a.246.2.1 137481 1t9zA 197 4.35e+01 c.108.1.16 106728 1u0oC 208 4.37e+01 c.62.1.1 144382 1m10A 208 4.42e+01 c.62.1.1 74361 1m0sA 219 4.66e+01 c.124.1.4,d.58.40.1 78351,78352 1p5uB 149 4.70e+01 b.2.3.2 87810 1z9sB 149 4.72e+01 b.2.3.2 144738 2r25B 133 4.79e+01 c.23.1.1 151530 1oxkB 134 4.82e+01 c.23.1.1 93691 1xwmA 217 4.89e+01 a.7.12.1 116132 1isuA 62 4.92e+01 1isuA g.35.1.1 44978 3dpbB 149 4.94e+01 1fnsA 196 5.02e+01 1auq c.62.1.1 34136 1ta0A 197 5.06e+01 c.108.1.16 106729 1wcgA 464 5.06e+01 c.1.8.4 120888 3l0yA 184 5.07e+01 2ghtA 181 5.22e+01 2ggjA 375 5.22e+01 2cugA 88 5.28e+01 1bi9A 499 5.30e+01 1bpwA c.82.1.1 35337 1dd1A 268 5.54e+01 b.26.1.1 23908 1g88A 268 5.57e+01 1ygs b.26.1.1 23911 1d2gA 292 5.69e+01 1xvaA c.66.1.5 34187 1omwA 689 5.72e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1whcA 64 5.82e+01 a.5.2.1 114640 2h84A 374 5.95e+01 1qx4A 274 5.97e+01 b.43.4.2,c.25.1.1 104624,104625 3jr2A 218 6.00e+01 1b93A 152 6.08e+01 1b93A c.24.1.2 31507 1s89A 152 6.11e+01 c.24.1.2 98721 1g87A 614 6.12e+01 a.102.1.2,b.2.2.2 83275,83276 1k72A 614 6.13e+01 a.102.1.2,b.2.2.2 84309,84310 1u7vB 236 6.17e+01 b.26.1.1 107730 1i7pA 274 6.20e+01 b.43.4.2,c.25.1.1 66048,66049 1u7fB 239 6.35e+01 b.26.1.1 107721 1xvaA 292 6.36e+01 1xvaA c.66.1.5 34183 1s8aA 152 6.44e+01 c.24.1.2 98727 1w72H 223 6.46e+01 b.1.1.1,b.1.1.2 114299,114300 2b39A 1661 6.47e+01 3l81A 301 6.53e+01 3hrzA 627 6.67e+01 1mr1A 235 6.70e+01 b.26.1.1 79418 1gl9B 1054 6.72e+01 c.37.1.16,c.37.1.16,e.10.1.1 65291,65292,65293 1gkuB 1054 6.73e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 1rscA 472 6.74e+01 1burA c.1.14.1,d.58.9.1 29381,39287 1rblA 467 6.74e+01 1burA c.1.14.1,d.58.9.1 29380,39286 1ygsA 234 6.79e+01 b.26.1.1 23907 1ulqA 401 6.97e+01 c.95.1.1,c.95.1.1 113267,113268 1wkoA 180 7.00e+01 2algA 92 7.05e+01 1r8sA 164 7.08e+01 c.37.1.8 97247 3d5pA 144 7.17e+01 1uwaA 475 7.25e+01 c.1.14.1,d.58.9.1 119734,119735 1uw9A 475 7.35e+01 c.1.14.1,d.58.9.1 119710,119711 2yxdA 183 7.51e+01 1hurA 180 7.66e+01 1hurA c.37.1.8 32052 1r8qA 181 7.69e+01 c.37.1.8 97243 2yx5A 83 7.70e+01 2ewhA 98 7.72e+01 d.58.56.1 132466 2kq2A 147 7.72e+01 1s4uX 407 7.74e+01 b.69.4.1 112027 1r8xA 292 7.78e+01 c.66.1.5 104855 1sjdA 368 7.84e+01 c.1.11.2,d.54.1.1 105632,105633