# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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 2fyxA 143 1.33e-01 d.58.57.1 134411 1c4oA 664 2.45e-01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1wc3A 219 5.42e-01 d.58.29.1 114495 1wc1A 226 5.44e-01 d.58.29.1 114492 1d2mA 665 6.83e-01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1yrnB 83 8.55e-01 1akhB a.4.1.1 15986 1xn8A 131 1.26e+00 a.229.1.1 115577 1x1fA 149 1.61e+00 b.55.1.1 121579 2hhiA 204 2.77e+00 2daqA 110 3.38e+00 b.34.9.2 131354 1j3mA 129 3.41e+00 d.129.7.1 103836 1ztsA 139 3.44e+00 1s4kA 120 3.80e+00 a.35.1.6 105254 1akhA 61 4.01e+00 1akhA a.4.1.1 15980 1mtzA 293 4.60e+00 c.69.1.7 79467 1qflA 389 5.05e+00 1afwA c.95.1.1 35908 c.95.1.1 35909 1ic8A 194 5.18e+00 a.4.1.1 76740 a.35.1.1 76741 1ki9A 192 5.67e+00 c.37.1.1 84404 1f75A 249 7.58e+00 1f75A c.101.1.1 59662 2rmsB 61 7.80e+00 2a2lA 145 7.94e+00 d.110.9.1 126035 2ca6A 386 8.04e+00 c.10.1.2 130151 1bgpA 309 8.23e+00 a.93.1.1 18690 1bqg 451 8.61e+00 1bqg 1vajA 214 8.74e+00 d.309.1.1 119907 2yxlA 450 8.78e+00 1xebA 150 8.89e+00 d.108.1.1 115219 1kjsA 74 9.12e+00 a.50.1.1 17792 2c0dA 221 9.53e+00 3cc1A 433 9.74e+00 1m4tA 392 9.93e+00 c.95.1.1 78617 c.95.1.1 78618 1m3kA 392 1.01e+01 c.95.1.1 78565 c.95.1.1 78566 2cwpA 112 1.06e+01 1ozhA 566 1.09e+01 c.31.1.3 93833 c.36.1.5 93834 c.36.1.9 93835 1rkqA 282 1.13e+01 c.108.1.10 97621 1xqwA 293 1.14e+01 2czlA 272 1.21e+01 c.94.1.1 131055 1v0jA 399 1.26e+01 1f44A 324 1.32e+01 a.60.9.1 64982 d.163.1.1 64983 2gqqA 163 1.34e+01 3cjeA 167 1.34e+01 4crxA 322 1.37e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1go5A 69 1.41e+01 a.5.2.3 65410 1wmiA 90 1.42e+01 d.298.1.2 121045 1lfb 99 1.42e+01 1lfb 1lfbA 99 1.42e+01 a.4.1.1 15989 1yrgA 385 1.46e+01 1yrgA c.10.1.2 30854 1yrnA 61 1.55e+01 1akhA a.4.1.1 15981 1xo0A 324 1.59e+01 a.60.9.1 115674 d.163.1.1 115675 1crxA 322 1.60e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1v2xA 194 1.60e+01 c.116.1.1 100274 3crxA 343 1.68e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1qydA 313 1.75e+01 c.2.1.2 96583 1dosA 358 1.80e+01 1dosA c.1.10.2 29175 1r5pA 108 1.81e+01 c.47.1.15 97101 2qjjA 402 1.81e+01 1u53A 196 1.82e+01 2dznB 82 1.89e+01 1wwjA 105 2.04e+01 2qptA 550 2.06e+01 2i5hA 205 2.07e+01 1zmbA 290 2.15e+01 c.23.10.7 125355 1ea0A 1479 2.22e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1dgsA 667 2.23e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 3cjhB 64 2.24e+01 1h3oA 75 2.27e+01 a.22.1.3 76644 2ciuA 127 2.31e+01 2c29D 337 2.37e+01 2i6uA 307 2.54e+01 1tikA 213 2.57e+01 c.23.5.3 107003 1duvG 333 2.61e+01 1othA c.78.1.1 35228 c.78.1.1 35229 2gasA 307 2.61e+01 1ytw 306 2.66e+01 1ytw 2vhxA 377 2.90e+01 1yqzA 438 2.97e+01 3cnxA 170 2.99e+01 3c19A 186 3.06e+01 2pfzA 301 3.10e+01 2jroA 78 3.12e+01 2abyA 146 3.15e+01 2pa5A 314 3.16e+01 1lyvA 306 3.20e+01 c.45.1.2 74348 2i6lA 320 3.29e+01 1kbuA 349 3.30e+01 a.60.9.1 72284 d.163.1.1 72285 2f60K 64 3.33e+01 5cytR 104 3.33e+01 1ycc a.3.1.1 15878 2nsfA 261 3.35e+01 1a7j 290 3.45e+01 1a7j 1a7jA 290 3.45e+01 c.37.1.6 31952 1t5bA 201 3.45e+01 c.23.5.3 106433 2bypA 214 3.47e+01 1qqyA 130 3.52e+01 3lzt d.2.1.2 36586 1fiy 883 3.54e+01 1fiy 2i5nC 336 3.60e+01 a.138.1.2 137063 1yptA 305 3.60e+01 1ytw c.45.1.2 32686 1vjyA 303 3.64e+01 d.144.1.7 108633 1zjrA 211 3.66e+01 2q1fA 1022 3.77e+01 2gzaA 361 3.77e+01 2pqqA 149 3.77e+01 1dxrC 336 3.90e+01 6prcC a.138.1.2 19670 2vojA 371 3.91e+01 1ym3A 215 3.91e+01 2qx0A 159 3.98e+01