# 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.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 1lba 146 1.37e-18 1lba d.118.1.1 41062 1gm6A 175 4.51e-02 1jv4A 162 8.73e-02 b.60.1.1 67343 1i06A 180 9.75e-02 1mup b.60.1.1 27131 1i05A 180 1.07e-01 1mup b.60.1.1 27130 1mup 166 4.88e-01 1mup b.60.1.1 27133 1ew3A 159 6.85e-01 1mup b.60.1.1 27114 1dbfA 127 9.03e-01 2chsA d.79.1.2 39761 2chsA 127 9.30e-01 2chsA d.79.1.2 39764 1jeoA 180 1.36e+00 c.80.1.3 66611 1hfoA 113 1.73e+00 d.80.1.3 61006 1bj7 156 1.94e+00 1bj7 b.60.1.1 27113 1cr6B 554 1.95e+00 1cr6B c.108.1.2 43338 c.69.1.11 34688 1ijyA 130 1.98e+00 1ijxA a.141.1.1 62517 1fj2A 232 2.07e+00 1auoA c.69.1.14 34720 1qr0A 228 2.08e+00 1qr0A d.150.1.1 59038 d.150.1.1 59039 1eq9A 222 2.08e+00 5ptp b.47.1.2 26068 1hlgA 371 2.54e+00 1hlgA c.69.1.6 34656 1toh 343 2.60e+00 4pah d.178.1.1 42573 1jnyA 435 2.92e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1kyqA 274 3.30e+00 1gd0A 122 3.36e+00 1dptA d.80.1.3 39834 1fezA 256 3.39e+00 1fezA c.108.1.3 43343 3pflA 759 3.44e+00 1cm5A c.7.1.1 30673 1cm5A 759 3.62e+00 1cm5A c.7.1.1 30671 2mcm 112 3.69e+00 2mcm b.1.7.1 22207 1rpxA 230 4.20e+00 1rpxA c.1.2.2 28536 1qu9A 128 4.29e+00 1qu9A d.79.1.1 39755 1qu9C 128 4.29e+00 1qu9A d.79.1.1 39757 1dzkA 157 4.36e+00 1obpA b.60.1.1 27096 2pflA 759 4.49e+00 1cm5A c.7.1.1 30675 1g6oA 330 4.97e+00 1g6oA c.37.1.13 32430 1cgo 127 5.18e+00 1cpq a.24.3.2 16550 1eq6A 189 5.20e+00 1eq6A d.107.1.1 40796 1ekeA 230 5.64e+00 1ekeA c.55.3.1 33572 1nwpA 128 6.09e+00 1nwpA b.6.1.1 23011 1e85A 127 6.23e+00 1bbhA a.24.3.2 16549 1a3yA 149 6.35e+00 1obpA b.60.1.1 27110 1qf5A 431 6.43e+00 1adeA c.37.1.10 32212 1rl2A 137 6.60e+00 1rl2A b.34.5.3 24610 b.40.4.5 25342 1duvG 333 7.33e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1mfiA 114 7.53e+00 1dptA d.80.1.3 39856 1atzB 189 8.21e+00 1atzA c.62.1.1 34133 5pal 109 8.37e+00 1a75A a.39.1.4 17215 1dmhA 311 8.47e+00 1dmhA b.3.6.1 22633 1rrpB 134 8.58e+00 1rrpB b.55.1.3 26995 1rpa 342 8.60e+00 1cviA c.60.1.2 33983 1ifqA 138 8.67e+00 1ifqA d.110.4.1 62350 1bdfA 235 9.09e+00 1bdfA d.74.3.1 39727 d.181.1.1 42602 1jmuB 666 9.45e+00 1yasA 257 9.69e+00 1qj4A c.69.1.20 34801 1otfA 62 9.70e+00 1otfA d.80.1.1 39820 1atzA 189 1.03e+01 1atzA c.62.1.1 34132 1kppA 145 1.08e+01 1qtwA 285 1.08e+01 1qumA c.1.15.1 29392 1f5mA 180 1.13e+01 1f5mB d.110.2.1 40895 1f5mB 180 1.13e+01 1f5mB d.110.2.1 40896 1jqaA 370 1.17e+01 e.22.1.2 67085 1i69A 219 1.17e+01 c.94.1.1 61825 1be9A 119 1.19e+01 1pdr b.36.1.1 24774 1pdkB 157 1.20e+01 1pdkB b.2.3.2 22427 1oakA 196 1.20e+01 1auq c.62.1.1 34138 1phk 298 1.21e+01 1cdkA d.144.1.1 41635 4blmA 265 1.24e+01 1btl e.3.1.1 42721 1ec7A 446 1.33e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1ofgA 381 1.33e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1aurA 218 1.33e+01 1auoA c.69.1.14 34718 1cz1A 394 1.40e+01 1cz1A c.1.8.3 28839 1auoA 218 1.40e+01 1auoA c.69.1.14 34716 1f8yA 157 1.44e+01 1f8xA c.23.14.1 31395 1eqcA 394 1.48e+01 1cz1A c.1.8.3 28811 1iicA 422 1.50e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1auq 208 1.53e+01 1auq c.62.1.1 34137 1adeA 431 1.57e+01 1adeA c.37.1.10 32213 3pmgA 561 1.58e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1gx3A 284 1.67e+01 1bfeA 119 1.68e+01 1pdr b.36.1.1 24775 1i2sA 282 1.69e+01 1f8xA 157 1.69e+01 1f8xA c.23.14.1 31397 1a8d 452 1.73e+01 1a8d b.29.1.6 24262 b.42.4.2 25607 1ejhA 190 1.81e+01 1ejhA d.86.1.1 40147 1dgsA 667 1.83e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1dywA 173 1.83e+01 2cpl b.62.1.1 27505 1qumA 285 1.88e+01 1qumA c.1.15.1 29393 1b8gA 429 1.94e+01 1b8gA c.67.1.4 34499 1es9A 232 1.96e+01 1wab c.23.10.3 31340 1qfmA 710 1.96e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1jq5A 370 2.06e+01 e.22.1.2 67084 1byuA 216 2.14e+01 1byuA c.37.1.8 32032 1wab 232 2.15e+01 1wab c.23.10.3 31341 1i50K 120 2.16e+01 d.74.3.2 61765 1svy 114 2.18e+01 1svy d.109.1.1 40831 1lxtA 561 2.24e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1k3bA 119 2.28e+01 1h7zA 194 2.31e+01 1qhvA b.21.1.1 60733 1qd9A 124 2.32e+01 1qu9A d.79.1.1 39758 1f7zA 233 2.40e+01 5ptp b.47.1.2 59681 1rvv1 154 2.40e+01 1rvv1 1rvvA 154 2.40e+01 1rvv1 c.16.1.1 30927 1kid 203 2.43e+01 1derA c.8.5.1 30771 2tbd 134 2.46e+01 2tbd d.89.1.1 40241 1tbd 134 2.52e+01 2tbd d.89.1.1 40240 1dkgD 383 2.56e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1fnoA 417 2.59e+01 1kmnD 424 2.62e+01 1adjA c.51.1.1 33185 d.104.1.1 40734 1e5dA 402 2.69e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1kz7A 353 2.71e+01 1gesA 450 2.71e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1bvh 157 2.73e+01 1dg9A c.44.1.1 32640 1isuA 62 2.79e+01 1isuA g.35.1.1 44978 1dd3C 32 2.81e+01 1dd3C a.108.1.1 19033 1jdfA 447 2.81e+01 c.1.11.2 62897 d.54.1.1 62898 1onrA 316 2.85e+01 1onrA c.1.10.1 29169 1lehA 364 2.89e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1hwyA 501 2.92e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1gosA 520 2.93e+01 c.3.1.2 65425 d.16.1.5 65426 3pnp 289 2.95e+01 1b8oA c.56.2.1 33763 1f6yA 262 2.98e+01 1f6yA c.1.21.2 29673 6cpa 307 3.01e+01 1aye c.56.5.1 33816 1fnsA 196 3.16e+01 1auq c.62.1.1 34136 1a5j 110 3.21e+01 1a5j a.4.1.3 16043 a.4.1.3 16044 1ipcA 217 3.30e+01 1qj4A 257 3.37e+01 1qj4A c.69.1.20 34796 1hqkA 154 3.39e+01 c.16.1.1 65902 2tysB 397 3.40e+01 2tysB c.79.1.1 35272 2wsyB 396 3.47e+01 2tysB c.79.1.1 35288 1gd1O 334 3.52e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1ijbA 202 3.53e+01 1l8bA 190 3.54e+01 1k1gA 131 3.57e+01 d.51.1.1 68015 1h2aS 317 3.60e+01 2frvA e.19.1.1 43311 1qopB 396 3.61e+01 2tysB c.79.1.1 35270 1spgB 147 3.62e+01 1cg5B a.1.1.2 15588 1qc5A 192 3.70e+01 1aoxA c.62.1.1 34147 1fljA 260 3.77e+01 2cba b.74.1.1 27954 1g99A 408 3.77e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 2ercA 244 3.78e+01 2ercA c.66.1.9 34224 2bvwA 362 3.79e+01 1bvwA c.6.1.1 30666 1d4oA 184 3.83e+01 1d4oA c.31.1.4 31748 1l7mA 211 3.90e+01 1ravA 127 3.91e+01 1swuA b.61.1.1 27409 3grs 478 3.91e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1brt 277 3.95e+01 1brt c.69.1.12 34699 1j5wA 298 3.96e+01