# List of top-scoring protein chains for T0331.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.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 1dnlA 199 1.80e-33 1ci0A b.45.1.1 25753 1g79A 218 1.82e-33 1ci0A b.45.1.1 25752 1nrgA 261 3.06e-28 b.45.1.1 80694 2a2jA 246 6.01e-25 1t9mA 214 1.71e-23 1ci0A 228 1.24e-21 1ci0A b.45.1.1 25750 1ty9A 222 2.98e-21 2fhqA 141 2.33e-11 1rfeA 162 2.69e-11 2fg9A 178 8.86e-07 1vl7A 157 2.63e-06 b.45.1.1 108732 2aq6A 147 7.68e-05 2asfA 137 2.48e-04 2furA 209 1.66e-02 2f5qA 274 5.77e-01 2f5nA 274 5.79e-01 1r2zA 274 5.93e-01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1l1zA 274 5.95e-01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1ejeA 192 7.92e-01 1ejeA b.45.1.2 25757 1xhnA 184 9.11e-01 1w3oA 216 9.82e-01 2arzA 247 1.07e+00 1ye8A 178 1.09e+00 1x53A 145 2.90e+00 1jdqA 98 3.42e+00 d.68.3.3 66559 1nar 290 3.80e+00 1nar c.1.8.5 28988 1y6hA 177 3.83e+00 1szzA 177 3.87e+00 1prr 173 4.25e+00 1prs b.11.1.1,b.11.1.1 23623,23624 2sli 679 5.54e+00 2sli b.29.1.9,b.68.1.1 24274,27611 2gukA 120 5.93e+00 1m1hA 248 6.42e+00 b.114.1.1,d.58.42.1 78415,78416 1kit 757 6.77e+00 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1w0pA 781 6.79e+00 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1y4tA 322 6.91e+00 2f6kA 307 6.92e+00 1tu7A 208 7.53e+00 1cauB 184 8.09e+00 1caxB b.82.1.2 28103 2a6sA 84 9.19e+00 1u09A 476 9.91e+00 e.8.1.4 107545 2f8eX 474 1.02e+01 1pnbB 75 1.05e+01 1pnbB 2evwX 166 1.08e+01 1gxiE 73 1.18e+01 b.34.4.2 83373 1oqkA 97 1.30e+01 b.137.1.1 93419 1qrrA 394 1.32e+01 1qrrA c.2.1.2 29824 2fcjA 119 1.34e+01 1i24A 404 1.35e+01 c.2.1.2 83663 1sm7A 109 1.40e+01 1qp2A 70 1.44e+01 1pse b.34.4.2 24596 2cqbA 102 1.47e+01 1dclA 216 1.57e+01 8fabA b.1.1.1,b.1.1.2 20565,21472 2mcg1 216 1.58e+01 8fabA 1mciA 216 1.58e+01 8fabA b.1.1.1,b.1.1.2 20581,21488 1xv1A 298 1.71e+01 1rhi1 288 1.71e+01 1pov1 1mh6A 125 1.72e+01 d.32.1.2 79116 1mcoL 216 1.73e+01 8fabA b.1.1.1,b.1.1.2 20563,21468 1ewjA 126 1.75e+01 1ecsA d.32.1.2 59526 1c9oA 66 1.81e+01 1mjc b.40.4.5 25325 1i5fA 66 1.81e+01 b.40.4.5 66034 1hzbA 66 1.81e+01 b.40.4.5 65965 1ecsA 126 1.83e+01 1ecsA d.32.1.2 59407 1hzaA 67 1.85e+01 b.40.4.5 65963 1aquA 297 1.90e+01 1aquA c.37.1.5 31942 1s1iR 137 1.90e+01 i.1.1.1 105192 1sxeA 97 1.92e+01 a.60.1.1 106080 1ip9A 85 2.11e+01 1ip9A d.15.2.2 62638 1yna 194 2.13e+01 1axkA b.29.1.11 24335 1zxiC 288 2.14e+01 1n62C 288 2.20e+01 d.87.2.1,d.145.1.3 80094,80095 1xq9A 258 2.25e+01 1rm3A 337 2.28e+01 c.2.1.3,d.81.1.1 104994,104995 1qwgA 251 2.30e+01 c.1.27.1 96473 1rm4A 337 2.31e+01 c.2.1.3,d.81.1.1 105000,105001 1rm5A 337 2.32e+01 c.2.1.3,d.81.1.1 105006,105007 1wliA 122 2.33e+01 1mjc 69 2.33e+01 1mjc b.40.4.5 25319 1wlkA 122 2.33e+01 1flmA 122 2.33e+01 1axj b.45.1.1 25747 1wllA 122 2.34e+01 2cavA 445 2.37e+01 1dgwA b.82.1.2,b.82.1.2 28094,28095 2etvA 346 2.52e+01 1hzcA 66 2.52e+01 b.40.4.5 65967 1d02A 202 2.52e+01 1d02A c.52.1.8 33313 1hz9A 66 2.53e+01 b.40.4.5 65961 1k68A 140 2.53e+01 c.23.1.1 90943 2ahuA 531 2.55e+01 1e93A 484 2.63e+01 e.5.1.1 64802 1h7kA 483 2.65e+01 e.5.1.1 90624 1m85A 484 2.65e+01 e.5.1.1 74578 1h6nA 484 2.66e+01 e.5.1.1 90623 2cqcA 95 2.72e+01 1jn0A 335 2.76e+01 c.2.1.3,d.81.1.1 66915,66916 1k0zA 156 2.80e+01 c.52.1.6 84273 1ej9A 563 2.82e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1eyuA 157 2.82e+01 3pviA c.52.1.6 33304 1wcdJ 441 2.83e+01 1lpqA 564 2.85e+01 a.2.8.1,d.163.1.2,e.15.1.1 74174,74175,74176 1ni0A 159 2.90e+01 c.52.1.6 80522 1rr8C 565 2.92e+01 d.163.1.2,e.15.1.1 105076,105077 1wceA 441 2.93e+01 1nh3A 563 2.97e+01 d.163.1.2,e.15.1.1 85710,85711 2h1iA 226 3.05e+01 1k66A 149 3.08e+01 c.23.1.1 90941 1ut7A 171 3.27e+01 b.143.1.1 99906 1nplA 109 3.29e+01 1b2pA b.78.1.1 27997 1tr8A 102 3.34e+01 1a35A 591 3.35e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1r49A 592 3.37e+01 a.2.8.1,d.163.1.2,e.15.1.1 96983,96984,96985 1rrjA 565 3.48e+01 a.2.8.1,d.163.1.2,e.15.1.1 105078,105079,105080 1a31A 591 3.51e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1k4tA 592 3.51e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 2bxxA 134 3.53e+01 1pse 69 3.55e+01 1pse b.34.4.2 24595 1eu3A 210 3.76e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1dlaA 314 3.83e+01 1frb c.1.7.1 28690 1ah4 315 3.83e+01 1frb c.1.7.1 28684 1ah0 316 3.84e+01 1frb c.1.7.1 28685 2ce7A 476 3.84e+01 1ihjA 98 3.98e+01 1pdr b.36.1.1 62382 1seuA 592 3.98e+01 2ffeA 311 4.09e+01 1rrvA 416 4.21e+01 c.87.1.5 105083 2c72A 520 4.26e+01 2c75A 520 4.31e+01 1lfpA 249 4.33e+01 e.39.1.1 73885 2c73A 520 4.33e+01 3pviA 157 4.36e+01 3pviA c.52.1.6 33300 1s3eA 520 4.44e+01 c.3.1.2,d.16.1.5 98426,98427 2bk5A 520 4.45e+01 2c5dC 195 4.48e+01 1fj2A 232 4.48e+01 1auoA c.69.1.14 34720 1rz1A 161 4.48e+01 b.45.1.2 98124 1bssA 244 4.53e+01 1rvaA c.52.1.2 33256 1fqiA 147 4.66e+01 1agrE a.91.1.1 18542 1j57A 143 4.70e+01 d.221.1.1 77079 1jpaA 312 4.74e+01 d.144.1.7 67011 1bbpA 173 4.76e+01 1bbpA b.60.1.1 27147 1oz9A 150 4.77e+01 d.92.1.15 93808 1xypA 190 4.91e+01 1axkA b.29.1.11 24327 1mfn 184 4.92e+01 1qr4B b.1.2.1,b.1.2.1 21984,21985 1gnwA 211 4.96e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1uhvA 500 5.11e+01 b.71.1.2,c.1.8.3 99402,99403 1kqnA 279 5.12e+01 c.26.1.3 77492 1gzuA 290 5.17e+01 c.26.1.3 70822 1dv1A 449 5.17e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1dv2A 452 5.22e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1kkuA 279 5.30e+01 c.26.1.3 72661 1suzA 244 5.33e+01 c.52.1.2 99013 1b97A 244 5.42e+01 1rvaA c.52.1.2 33252 2c76A 520 5.60e+01 1tdhA 364 5.67e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1weoA 93 5.74e+01 1b96A 244 5.79e+01 1rvaA c.52.1.2 33268 1xnd 190 5.81e+01 1axkA b.29.1.11 24321 1o4tA 133 5.85e+01 b.82.1.9 86622 1sx5A 244 6.04e+01 c.52.1.2 99023 1oflA 481 6.04e+01 b.80.1.4 103934 1b94A 244 6.05e+01 1rvaA c.52.1.2 33250 1eonA 245 6.06e+01 1rvaA c.52.1.2 33238 1dx4A 585 6.21e+01 2bce c.69.1.1 34622 2btlA 134 6.24e+01 1h76A 696 6.34e+01 c.94.1.2,c.94.1.2 65699,65700 1dboA 506 6.36e+01 1dbgA b.80.1.4 28034 2cwpA 112 6.62e+01 1oy5A 257 6.74e+01 c.116.1.4 93718 1jrqA 727 6.86e+01 b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 67185,67186,67187,67188 1oacA 727 6.90e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1iaqA 166 6.98e+01 1ctqA c.37.1.8 62120 1lvnA 727 6.99e+01 b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 91138,91139,91140,91141 1wq3A 322 7.05e+01 1h6fA 193 7.05e+01 b.2.5.4 70901 1oaoC 729 7.07e+01 e.26.1.3 86746 1ep5A 157 7.16e+01 b.47.1.3 83186 1qakA 722 7.22e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24392,38011,38012,40005 1qalA 721 7.28e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24406,38039,38040,40019 1qafA 721 7.29e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24400,38027,38028,40013 1xj0A 166 7.58e+01 1xcmA 167 7.59e+01 1mjgM 729 7.68e+01 e.26.1.3 79204 1w2iA 91 7.71e+01 d.58.10.1 109127 1wq4A 321 7.76e+01 1pbyA 489 7.84e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1wmmA 145 7.85e+01 1u7xA 312 7.86e+01 1bia 321 7.91e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1pvxA 194 7.94e+01 1axkA b.29.1.11 24341 2pviA 157 8.06e+01 3pviA c.52.1.6 33302 1mcoH 428 8.14e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 20564,21469,21470,21471 2f9jA 125 8.37e+01 1yixA 265 8.68e+01 1x8xA 322 8.71e+01 1nfdE 212 8.82e+01 8fabA b.1.1.1,b.1.1.2 20186,21202 1ois 223 8.85e+01 1a36A e.15.1.1 43267 1jsdA 319 8.94e+01 b.19.1.2 63258