# List of top-scoring protein chains for T0397.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 1rpxA 230 2.36e-02 1rpxA c.1.2.2 28536 1labA 80 1.12e-01 b.84.1.1 28226 1z6hA 72 4.67e-01 2ejmA 99 5.21e-01 1tqjA 230 5.47e-01 c.1.2.2 107228 1brwA 433 5.90e-01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1mk4A 157 8.17e-01 d.108.1.1 84979 1s1iB 253 2.09e+00 i.1.1.1 105176 2czlA 272 2.39e+00 c.94.1.1 131055 2dneA 108 3.53e+00 1efhA 292 4.17e+00 1aquA c.37.1.5 31948 1ov4A 293 4.22e+00 c.37.1.5 93581 1hpcA 131 4.39e+00 1htp b.84.1.1 28221 2dyiA 162 5.18e+00 1j99A 293 5.34e+00 c.37.1.5 71618 1gs7A 336 6.04e+00 b.6.1.3,b.6.1.3 65531,65532 1zkoA 136 6.63e+00 2gaiA 633 7.05e+00 1seiA 130 8.11e+00 1seiA d.140.1.1 41463 1mb3A 124 8.38e+00 c.23.1.1 78907 1yavA 159 9.14e+00 d.37.1.1,d.37.1.1 116595,116596 1gprA 162 9.25e+00 b.84.3.1 28267 2eenA 183 9.26e+00 1fycA 106 1.15e+01 b.84.1.1 28230 1gjxA 81 1.16e+01 b.84.1.1 65222 2q74A 299 1.20e+01 1y8oB 128 1.26e+01 b.84.1.1 122759 1wzuA 300 1.28e+01 c.145.1.1 121528 2edgA 130 1.35e+01 2bp0A 336 1.36e+01 1wa0X 336 1.37e+01 b.6.1.3,b.6.1.3 114425,114426 2bp0B 336 1.38e+01 1yx0A 159 1.38e+01 d.108.1.1 124168 2jfcA 335 1.39e+01 b.6.1.3,b.6.1.3 138291,138292 1gs8A 336 1.40e+01 b.6.1.3,b.6.1.3 65533,65534 1oe1A 336 1.40e+01 b.6.1.3,b.6.1.3 86891,86892 1wa1X 336 1.40e+01 b.6.1.3,b.6.1.3 114427,114428 1oe2A 336 1.40e+01 b.6.1.3,b.6.1.3 86893,86894 1ndtA 336 1.41e+01 1nif b.6.1.3,b.6.1.3 23108,23109 2bo0A 336 1.41e+01 b.6.1.3,b.6.1.3 128867,128868 2bp8A 336 1.41e+01 1gs6X 336 1.43e+01 b.6.1.3,b.6.1.3 65529,65530 1bhuA 102 1.43e+01 b.11.1.3 23631 2bp8B 336 1.44e+01 1waeA 336 1.46e+01 b.6.1.3,b.6.1.3 114434,114435 1bq5A 342 1.49e+01 b.6.1.3,b.6.1.3 23110,23111 2hyoA 280 1.61e+01 3crkC 87 1.64e+01 2bazA 142 1.66e+01 1h8gA 95 1.66e+01 b.109.1.1 65735 2bmlA 126 1.75e+01 b.109.1.1 128802 1hcxA 127 1.77e+01 b.109.1.1 65800 1bxsA 501 1.84e+01 1bpwA c.82.1.1 35357 1gvmA 136 1.89e+01 b.109.1.1 70612 2ap1A 327 1.91e+01 c.55.1.10,c.55.1.10 127108,127109 2qnkA 286 1.93e+01 2hy1A 280 1.97e+01 2dgyA 111 2.01e+01 1avaA 403 2.02e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1nkwN 166 2.10e+01 i.1.1.2 80599 1pnuN 125 2.12e+01 i.1.1.1 88211 2dncA 98 2.20e+01 2evbA 74 2.31e+01 2qe7A 502 2.32e+01 2ipxA 233 2.35e+01 2hypA 280 2.37e+01 1z9bA 135 2.40e+01 2gcuA 245 2.54e+01 1uymA 220 2.56e+01 d.122.1.1 108148 1ixrC 312 2.58e+01 a.4.5.11,c.37.1.20 76930,76931 1ixsB 318 2.59e+01 a.4.5.11,c.37.1.20 76933,76934 1hqcA 324 2.60e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 1lmeA 176 2.86e+01 d.167.1.1 84629 2qm1A 326 2.95e+01 2dsjA 423 3.11e+01 2e4qA 109 3.41e+01 1konA 249 3.46e+01 e.39.1.1 72823 2azqA 311 3.58e+01 2gya2 222 3.67e+01 2rdo9 233 3.73e+01 2a4cA 99 3.99e+01 3cnwA 148 4.00e+01 2pgdA 482 4.01e+01 a.100.1.1,c.2.1.6 18778,30190 1ko6A 187 4.08e+01 b.119.1.1 77471 1i94H 138 4.36e+01 1seiA d.140.1.1 61999 1fm4A 159 4.53e+01 1bv1 d.129.3.1 76186 1nfdF 222 4.55e+01 1igtB b.1.1.1,b.1.1.2 20187,21203 1iueA 98 4.61e+01 d.15.4.1 90697 1y7rA 133 4.65e+01 d.108.1.1 122716 1qjoA 80 4.75e+01 1iyu b.84.1.1 28229 2e0iA 440 5.02e+01 1an7A 136 5.03e+01 1seiA d.140.1.1 41465 2vqeH 138 5.06e+01 1zy8K 229 5.10e+01 1tdtA 259 5.48e+01 3tdt b.81.1.2 28055 2a4eA 215 5.51e+01 1iyuA 79 5.64e+01 b.84.1.1 28227 2j6iA 364 5.76e+01 1yqeA 282 5.86e+01 c.56.7.1 123879 3tdtA 274 5.99e+01 b.81.1.2 28053 3csvA 333 6.16e+01 1dczA 77 6.22e+01 1iyu b.84.1.1 28219 2bl0C 142 6.32e+01 1gk7A 39 6.39e+01 h.1.20.1 70212 2fssA 365 6.66e+01 1rypB 250 6.71e+01 1rypB d.153.1.4 41933 1k6dA 220 6.72e+01 c.124.1.2 72082 3bjoA 103 6.72e+01 2asiA 361 6.84e+01 b.50.1.2 26824 2gytA 76 6.93e+01 1g63A 181 7.06e+01 1g5qA c.34.1.1 60299 1o78A 84 7.07e+01 b.84.1.1 81130 1q2oA 416 7.50e+01 d.174.1.1 95632 1zztA 416 7.56e+01 2g6oA 416 7.56e+01 d.174.1.1 134715 1p6mA 417 7.57e+01 d.174.1.1 94181 2qaiA 111 7.75e+01 1d0cA 444 7.77e+01 d.174.1.1 64769 2c0rA 362 7.77e+01 c.67.1.4 129604 1qhqA 140 7.90e+01 1qhqA b.6.1.1 63326 1hruA 188 7.92e+01 1hruA d.115.1.1 40926