# List of top-scoring protein chains for t04-100-30-bys 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 1souA 194 2.27e-27 1v9fA 325 2.75e-01 1ehiA 377 4.37e-01 1iow c.30.1.2 31716 d.142.1.1 41484 1dqwA 267 7.48e-01 1dqwA c.1.2.3 28551 1dl5A 317 7.76e-01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1ls1A 295 9.76e-01 a.24.13.1 78170 c.37.1.10 78171 1mk4A 157 1.55e+00 d.108.1.1 84979 1omzA 293 1.66e+00 c.68.1.15 87093 1jbeA 128 1.93e+00 3chy c.23.1.1 62845 1ass 159 2.37e+00 1a6dA c.8.5.2 30818 1ixkA 315 2.68e+00 unknown_sccs -8099 3chy 128 2.97e+00 3chy c.23.1.1 31038 1jeyB 565 3.41e+00 1jeqB unknown_sccs -4431 unknown_sccs -7995 1egwA 77 3.46e+00 1mnmA d.88.1.1 40234 2ng1 293 3.80e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1jg1A 235 4.25e+00 c.66.1.7 66661 1q7zA 566 4.32e+00 c.1.21.2 -5638 c.1.26.1 -5666 3xis 387 4.82e+00 4xis c.1.15.3 29423 1bdmA 327 5.01e+00 1bmdA c.2.1.5 30137 d.162.1.1 42104 1r4uA 301 5.17e+00 d.96.1.4 -10709 d.96.1.4 -10710 1qysA 106 5.85e+00 unknown_sccs -13432 1m3kA 392 6.08e+00 c.95.1.1 78565 c.95.1.1 78566 4xis 387 6.13e+00 4xis c.1.15.3 29421 1ka9H 200 6.16e+00 c.23.16.1 77308 1m4tA 392 6.16e+00 c.95.1.1 78617 c.95.1.1 78618 1g2iA 166 6.38e+00 1g2iA c.23.16.2 31438 1poiA 317 6.52e+00 1poiA unknown_sccs 34153 1sv6A 269 6.53e+00 1w2wB 191 6.53e+00 1jflA 228 6.60e+00 c.78.2.1 71656 c.78.2.1 71657 1h7wA 1025 6.78e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1i1nA 226 7.10e+00 c.66.1.7 71102 1ca1 370 7.12e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1b0uA 262 7.43e+00 1b0uA c.37.1.12 32370 1usgA 346 7.45e+00 c.93.1.1 -8635 1j5vA 351 7.62e+00 c.72.1.1 71585 1rjdA 334 8.15e+00 unknown_sccs -8079 1oxxK 353 8.64e+00 b.40.6.3 -3969 c.37.1.12 -7187 1ih8A 271 8.78e+00 2nsyA c.26.2.1 62377 1i60A 278 8.89e+00 c.1.15.4 71118 1gz6A 319 8.98e+00 c.2.1.2 76410 1kqpA 271 9.33e+00 c.26.2.1 72883 1uox 296 1.02e+01 1uox 1f5mA 180 1.04e+01 1f5mB d.110.2.1 40895 1korA 400 1.05e+01 c.26.2.1 72824 d.210.1.1 72825 1jvnA 555 1.06e+01 c.1.2.1 67355 c.23.16.1 67356 1qflA 389 1.10e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1gteA 1025 1.11e+01 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1jmxB 349 1.13e+01 b.69.2.2 66906 1oxsC 353 1.14e+01 b.40.6.3 87519 c.37.1.12 87520 1fmcA 255 1.14e+01 1cydA c.2.1.2 29856 1lyp 32 1.15e+01 1lyp j.17.1.1 46169 1uedA 406 1.17e+01 a.104.1.1 -1459 1nox 205 1.18e+01 1nox d.90.1.1 40242 1nowA 507 1.20e+01 c.1.8.6 85936 d.92.2.1 85937 1gc5A 467 1.40e+01 1gc5A c.72.1.3 60429 1obbA 480 1.42e+01 c.2.1.5 86760 d.162.1.2 86761 1s2dA 167 1.44e+01 c.23.14.1 -6469 1vhtA 218 1.52e+01 c.37.1.1 -7004 1qstA 160 1.53e+01 1yghA d.108.1.1 40804 1qamA 244 1.57e+01 2ercA c.66.1.24 34220 1l2tA 235 1.59e+01 c.37.1.12 73514 1po5A 476 1.62e+01 a.104.1.1 -1467 1a04A 215 1.67e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1ub4A 110 1.68e+01 b.34.6.2 88399 1din 236 1.70e+01 1din c.69.1.9 34682 1d6jA 211 1.72e+01 1d6jA c.37.1.4 31940 1h4vB 421 1.72e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1evlA 401 1.76e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1qk8A 146 1.80e+01 1ewxA c.47.1.10 33061 1mkmA 249 1.82e+01 a.4.5.33 79242 d.110.2.2 79243 1eudB 396 1.83e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1n45A 233 1.90e+01 a.132.1.1 79981 1k3rA 268 2.00e+01 b.40.4.10 72018 c.116.1.2 72019 1lv7A 257 2.02e+01 c.37.1.20 78232 1tluA 130 2.13e+01 1gskA 513 2.16e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1gd0A 122 2.22e+01 1dptA d.80.1.3 39834 1p8kZ 254 2.23e+01 d.95.2.1 -10648 d.95.2.1 -10649 2ts1 419 2.27e+01 2ts1 c.26.1.1 31564 1przA 252 2.29e+01 unknown_sccs -10158 1i7pA 274 2.33e+01 b.43.4.2 66048 c.25.1.1 66049 1uf3A 228 2.46e+01 unknown_sccs -11463 1qfoA 119 2.51e+01 1qfoA b.1.1.1 19708 1k2yX 463 2.58e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1ekeA 230 2.58e+01 1ekeA c.55.3.1 33572 1i50B 1224 2.63e+01 e.29.1.1 61755 1fcjA 322 2.64e+01 1oasA c.79.1.1 35289 1qq8A 214 2.68e+01 1qq8A 1d2kA 392 2.69e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1rwiA 270 2.69e+01 unknown_sccs -4603 1auoA 218 2.71e+01 1auoA c.69.1.14 34716 1m6dA 214 2.80e+01 d.3.1.1 84849 1cozA 129 2.82e+01 1cozA c.26.1.2 31598 1tidB 119 2.84e+01 1htqA 477 2.84e+01 d.15.9.1 71035 d.128.1.1 71036 1ndh 272 2.85e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1uouA 474 2.89e+01 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1srrA 124 2.91e+01 1dz3A c.23.1.1 31110 1bmdA 327 2.95e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1o8xA 146 2.97e+01 c.47.1.10 86681 1ow1A 195 3.00e+01 unknown_sccs -4422 1ufbA 127 3.07e+01 a.24.16.3 -635 1p80A 753 3.13e+01 c.23.16.3 -6547 e.5.1.1 -11840 1n2eA 300 3.13e+01 c.26.1.4 85268 1dhkB 223 3.17e+01 1led b.29.1.1 24157 1oacA 727 3.21e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 2lbp 346 3.26e+01 2liv c.93.1.1 35709 1spgB 147 3.30e+01 1cg5B a.1.1.2 15588 1e8aA 91 3.35e+01 1b4cA a.39.1.2 17188 1gy8A 397 3.45e+01 c.2.1.2 83376 1g63A 181 3.46e+01 1g5qA c.34.1.1 60299 1a8rA 221 3.47e+01 1a8rA d.96.1.1 40587 1ofuA 320 3.47e+01 c.32.1.1 86972 d.79.2.1 86973 1ga0A 364 3.47e+01 1gceA e.3.1.1 60410 1rgzA 363 3.52e+01 e.3.1.1 -11771 1ct9A 553 3.58e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1o69A 394 3.66e+01 c.67.1.4 -8209 1vjtA 483 3.67e+01 c.2.1.5 -5941 d.162.1.2 -11508 1wdkC 390 3.68e+01 1qy5A 269 3.70e+01 d.122.1.1 -10958 1cfr 285 3.77e+01 1cfr c.52.1.7 33312 1ll7A 392 3.78e+01 c.1.8.5 78085 d.26.3.1 78086 1gt91 357 3.81e+01 1ug6A 431 3.81e+01 c.1.8.4 88490 1gmlA 178 3.83e+01 c.8.5.2 70273 1gqpA 221 3.87e+01 b.18.1.9 70372 1cf9A 753 3.89e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1f8yA 157 3.89e+01 1f8xA c.23.14.1 31395 1gcoA 261 3.92e+01 1ybvA c.2.1.2 29884 1o5iA 249 3.96e+01 c.2.1.2 -5833 1geeA 261 3.97e+01 c.2.1.2 -5814