# List of top-scoring protein chains for t2k.100-30-str 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 1yqyA 523 1.03e-04 d.92.1.14 123903 d.166.1.1 123904 1j7nA 776 1.45e-04 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 2ejqA 130 3.83e-03 1v9dA 340 2.04e-01 a.207.1.1 100535 1hyt 316 3.01e-01 1hyt 8tlnE 316 3.16e-01 1hyt d.92.1.2 59075 2ckiA 262 3.47e-01 1rm8A 169 3.97e-01 d.92.1.11 97660 1tx4A 198 5.52e-01 1tx4A a.116.1.1 19098 1y2kA 349 7.78e-01 a.211.1.2 122571 3c37A 253 9.08e-01 1i76A 163 9.27e-01 1hfc d.92.1.11 61877 2ngrB 234 9.52e-01 1tx4A a.116.1.1 19105 1bzsA 165 1.01e+00 1hfc d.92.1.11 40348 1n5uA 585 1.08e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1kuh 132 1.20e+00 1kuh 1c7kA 132 1.20e+00 1kuh d.92.1.1 59078 1e7aA 585 1.30e+00 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1ovlA 271 1.43e+00 a.123.1.1 87455 1wpaA 114 1.70e+00 h.4.17.1 121145 1bqbA 301 1.81e+00 1hyt d.92.1.2 58962 2ps1A 226 1.94e+00 1fbaA 361 2.04e+00 1fbaA c.1.10.1 29120 1f0jA 377 2.26e+00 1f0jA a.211.1.2 19346 3b9eA 584 2.29e+00 1xawA 140 2.41e+00 h.4.17.1 121831 1tbbA 332 2.47e+00 a.211.1.2 106741 1u4gA 301 2.54e+00 d.92.1.2 107670 1am4A 199 2.75e+00 1tx4A a.116.1.1 19100 1o5kA 306 2.93e+00 c.1.10.1 92504 1jeoA 180 2.94e+00 c.80.1.3 66611 2cbyA 208 2.95e+00 c.14.1.1 130202 1ezm 301 3.53e+00 1hyt 2om6A 235 3.54e+00 2oqcA 327 3.70e+00 1dq3A 454 4.57e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1y93A 159 4.75e+00 d.92.1.11 122772 1n46A 258 5.13e+00 a.123.1.1 85315 2v4bA 300 5.29e+00 1hs6A 611 5.72e+00 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1r1hA 696 5.82e+00 d.92.1.4 104756 3b8zA 217 5.89e+00 1fcjA 322 6.21e+00 1oasA c.79.1.1 35289 1iab 200 6.30e+00 1iae 1iabA 200 6.30e+00 d.92.1.8 40312 1iae 200 6.35e+00 1iae 3cqbA 107 6.36e+00 1qsdA 106 6.46e+00 1qsdA a.7.5.1 16335 1vb3A 428 6.90e+00 c.79.1.1 119942 2z84A 218 7.21e+00 2fnuA 375 7.21e+00 c.67.1.4 133831 3bhwA 209 7.24e+00 2h1nA 567 7.36e+00 1zaiA 363 7.72e+00 c.1.10.1 124828 2drhA 361 7.80e+00 2h1tA 188 7.89e+00 1zgyA 272 8.44e+00 a.123.1.1 125064 1y791 680 8.64e+00 2i53A 258 8.82e+00 1adoA 363 9.03e+00 1fbaA c.1.10.1 29124 2ig8A 144 9.07e+00 1ts3A 194 9.14e+00 1aw7A b.40.2.2 25168 d.15.6.1 37757 3tssA 194 9.28e+00 b.40.2.2 25160 d.15.6.1 37749 1kfuL 699 9.43e+00 a.39.1.8 68571 b.14.1.1 68572 d.3.1.3 68573 3b8dA 363 9.46e+00 1ylqA 96 9.61e+00 d.218.1.5 123671 2q88A 257 9.62e+00 1uu1A 335 9.74e+00 c.67.1.1 99993 2vqeM 126 9.79e+00 1dmtA 696 9.90e+00 1dmtA d.92.1.4 40296 2fbkA 181 9.91e+00 a.4.5.28 133247 3bv4A 341 1.00e+01 2bxkA 585 1.01e+01 a.126.1.1 129431 a.126.1.1 129432 1v54D 147 1.02e+01 f.23.1.1 100325 3d0cA 314 1.03e+01 2vj8A 611 1.03e+01 2vhjA 331 1.05e+01 2fmlA 273 1.07e+01 a.4.5.68 133778 d.113.1.6 133779 2i9fA 69 1.09e+01 1lbd 282 1.09e+01 1lbd 1w44A 331 1.09e+01 c.37.1.11 114147 1vin 268 1.10e+01 1vin 1oasA 322 1.14e+01 1oasA c.79.1.1 35293 1r1tA 122 1.18e+01 a.4.5.5 104769 1qryA 80 1.18e+01 2hddA a.4.1.1 16016 2g62A 325 1.19e+01 a.268.1.1 134685 2d0tA 406 1.21e+01 a.266.1.2 131093 1v3yA 192 1.22e+01 d.167.1.1 113508 2opwA 291 1.23e+01 2py2A 136 1.23e+01 1q0qA 406 1.24e+01 a.69.3.1 104464 c.2.1.3 104465 d.81.1.3 104466 1fcyA 236 1.24e+01 2lbd a.123.1.1 19282 1yoeA 322 1.30e+01 1cb0A 283 1.31e+01 1cb0A c.56.2.1 33790 1smtA 122 1.31e+01 1smtA a.4.5.5 16109 2in1A 175 1.35e+01 d.20.1.4 137521 1i1sA 96 1.37e+01 1bjaA a.4.5.9 16124 3cjnA 162 1.38e+01 1svmA 377 1.42e+01 c.37.1.20 112126 2eu9A 355 1.43e+01 2r8wA 332 1.46e+01 1oz9A 150 1.47e+01 d.92.1.15 93808 1wh8A 111 1.47e+01 a.35.1.7 114636 1ohuA 175 1.48e+01 f.1.4.1 93029 1n25A 368 1.49e+01 c.37.1.20 85264 2hddA 61 1.49e+01 2hddA a.4.1.1 15971 1q5dA 419 1.52e+01 a.104.1.1 95891 2o1eA 312 1.53e+01 1yiqA 689 1.58e+01 1prgA 270 1.60e+01 2prgA a.123.1.1 19314 1h3nA 878 1.61e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1jvsA 400 1.62e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 830cA 168 1.63e+01 1ck7A d.92.1.11 40400 2c3nA 247 1.63e+01 1aw7A 194 1.65e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1j0mA 752 1.67e+01 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 2lbd 267 1.69e+01 2lbd 1knqA 175 1.70e+01 c.37.1.17 72786 2pl3A 236 1.70e+01 1yisA 478 1.71e+01 1nbwA 607 1.82e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1exzA 141 1.86e+01 1exzA a.26.1.2 16877 2ixmA 303 1.90e+01 a.268.1.1 137776 2h5nA 133 1.93e+01 1enh 54 1.93e+01 2hddA 1lml 478 1.93e+01 1lml 1lmlA 478 1.93e+01 d.92.1.3 40295 1g5yA 238 1.95e+01 1lbd a.123.1.1 60294 1idk 359 1.99e+01 1qcxA 1idkA 359 1.99e+01 b.80.1.2 28025 1nexB 464 2.00e+01 a.158.1.1 80443 b.69.4.1 80444 2pv4A 145 2.01e+01 1vraB 215 2.02e+01 1k9tA 540 2.04e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 3choA 610 2.04e+01 1rl4A 188 2.12e+01 d.167.1.1 97636 1vflA 356 2.13e+01 c.1.9.1 120041 1z5nA 242 2.13e+01 2avdA 219 2.13e+01 c.66.1.1 127377 1s9pA 227 2.13e+01 a.123.1.1 105384 1ed5A 444 2.16e+01 1nseA d.174.1.1 42530 2z6oA 172 2.18e+01 1bjaA 95 2.20e+01 1bjaA a.4.5.9 16122 2j1dG 483 2.21e+01 1d0cA 444 2.23e+01 d.174.1.1 64769 1lfb 99 2.26e+01 1lfb 1lfbA 99 2.26e+01 a.4.1.1 15989 1w1iE 357 2.27e+01 c.1.9.1 109051 1z5hA 780 2.29e+01 1edqA 540 2.30e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1ctn 540 2.30e+01 1ctn 2d2mD 145 2.31e+01 2p1tA 240 2.31e+01 1g1eB 89 2.33e+01 1g1eB a.59.1.1 17931 1b72A 97 2.38e+01 2hddA a.4.1.1 16000 1jysA 242 2.39e+01 c.56.2.1 77216 2cchB 260 2.41e+01 a.74.1.1 130237 a.74.1.1 130238 2vtyA 182 2.41e+01 1du0A 57 2.42e+01 2hddA a.4.1.1 15974 1fg7A 356 2.43e+01 1gewA c.67.1.1 59819 1fy7A 278 2.47e+01 1fy7A d.108.1.1 40817 2v26A 784 2.48e+01 2cxxA 190 2.50e+01 c.37.1.8 131013 1zcjA 463 2.53e+01 1w77A 228 2.56e+01 c.68.1.13 120679 1mp8A 281 2.57e+01 d.144.1.7 91384 1iqpA 327 2.58e+01 a.80.1.1 62649 c.37.1.20 62650 3cmnA 372 2.60e+01 1d1gA 168 2.61e+01 1d1gA c.71.1.1 34889 2b8wA 328 2.62e+01 1j3gA 187 2.66e+01 d.118.1.1 77075 1v38A 78 2.68e+01 a.60.1.2 100280 1q8fA 313 2.69e+01 c.70.1.1 96203 2gw6A 123 2.69e+01 1fkx 349 2.72e+01 1a4mA 1hddC 61 2.75e+01 2hddA a.4.1.1 15978 2c4wA 176 2.78e+01 1bj5 585 2.78e+01 1bj5 1t07A 94 2.82e+01 d.279.1.1 106196 1kugA 203 2.84e+01 d.92.1.9 73008 2fp4B 395 2.88e+01 c.23.4.1 133897 d.142.1.4 133898 1wtaA 275 2.89e+01 2jesA 503 2.93e+01 1rwtA 232 2.94e+01 f.43.1.1 97992 1a4mA 349 3.01e+01 1a4mA c.1.9.1 29014 1l1lA 739 3.01e+01 c.7.1.4 73470 1e9lA 377 3.01e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1j7qA 86 3.04e+01 1j7rA a.39.1.5 62700 1gx1A 160 3.08e+01 d.79.5.1 70675 3bv0A 437 3.12e+01 2occA 514 3.12e+01 2occA f.24.1.1 43518 1qe5A 266 3.13e+01 1b8oA c.56.2.1 33784 1ijdB 42 3.13e+01 f.3.1.1 66156 2b9eA 303 3.14e+01 c.66.1.38 128124 1q6aA 107 3.17e+01 a.186.1.1 95966 2gpuA 230 3.19e+01 a.123.1.1 135493 3bptA 363 3.22e+01 3cskA 711 3.24e+01 2prgA 271 3.27e+01 2prgA a.123.1.1 19311 1t7lA 766 3.28e+01 1q87A 221 3.29e+01 e.47.1.1 96192 1xiuA 230 3.29e+01 1yovA 537 3.30e+01 c.111.1.2 123785 1jk3A 158 3.32e+01 d.92.1.11 66790 1v54A 514 3.35e+01 f.24.1.1 100321 1ar1A 558 3.36e+01 2occA f.24.1.1 43618 1a28A 256 3.36e+01 1a28A a.123.1.1 19290 1jihA 531 3.37e+01 d.240.1.1 90374 e.8.1.7 90375 1ejxA 100 3.43e+01 d.8.1.1 83182 1wzdA 215 3.45e+01 a.132.1.1 121493 1akhA 61 3.46e+01 1akhA a.4.1.1 15980 2e2rA 244 3.50e+01 1sqnA 261 3.50e+01 a.123.1.1 105944 1kufA 203 3.55e+01 d.92.1.9 73007 1vmbA 140 3.55e+01 d.58.14.1 113672 1stzA 338 3.57e+01 a.4.5.51 106009 d.110.2.3 106010 2bkhA 814 3.57e+01 1zu0A 529 3.57e+01 2f8lA 344 3.60e+01 c.66.1.45 133132 1mmqA 170 3.62e+01 d.92.1.11 40396 2jg0A 535 3.62e+01 1xeoA 168 3.65e+01 d.167.1.1 121913 1xknA 355 3.65e+01 d.126.1.6 115414 3cg5A 265 3.65e+01 1gewA 356 3.66e+01 1gewA c.67.1.1 60470 1v73A 342 3.69e+01 2gdnA 267 3.69e+01 1vp6A 138 3.70e+01 b.82.3.2 113939 1hg4A 279 3.73e+01 1lbd a.123.1.1 19333 1vf8A 377 3.76e+01 c.1.8.5 120029 d.26.3.1 120030 3cloA 258 3.79e+01 1bf5A 545 3.80e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1x6iA 91 3.83e+01 1x0lA 333 3.86e+01 1sr7A 259 3.88e+01 a.123.1.1 105957 2qecA 204 3.90e+01 1ois 223 3.92e+01 1a36A 1oisA 223 3.92e+01 e.15.1.1 43267 2jdiA 510 3.93e+01 1eyvA 156 3.96e+01 1eyvA a.79.1.1 18446 1pioA 257 3.98e+01 1btl e.3.1.1 42719 2pw0A 397 4.00e+01