# List of top-scoring protein chains for t04-100-30-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 1l0iA 78 1.56e-08 a.28.1.1 77643 1f80D 81 1.10e-06 1acp a.28.1.1 59686 1j0aA 325 1.15e-01 c.79.1.1 83871 1h05A 146 3.65e-01 c.23.13.1 76433 1jr2A 286 5.29e-01 c.113.1.1 67111 2dhqA 146 6.17e-01 2dhqA c.23.13.1 31382 1o4vA 183 6.64e-01 c.23.8.1 86628 1viaA 175 6.75e-01 1dptA 117 8.51e-01 1dptA d.80.1.3 39862 1lm8B 118 9.25e-01 d.15.1.1 74033 1n9lA 109 9.42e-01 d.110.3.6 85468 1lc5A 364 1.03e+00 c.67.1.1 73827 1eg5A 384 1.07e+00 1ecxA c.67.1.3 34429 1gd0A 122 1.29e+00 1dptA d.80.1.3 39834 1jj2W 91 1.37e+00 1ffkU d.29.1.1 63108 1h5uA 842 1.62e+00 1a8i c.87.1.4 60655 1jqeA 292 1.66e+00 c.66.1.19 71789 1h5wA 309 1.73e+00 e.27.1.1 65635 1c3cA 429 1.75e+00 1c3cA a.127.1.1 19425 1ijgA 309 1.77e+00 1fouA e.27.1.1 62493 1j3mA 129 1.78e+00 1ytfB 53 2.08e+00 1ytfB a.32.1.1 16997 1ks9A 291 2.19e+00 a.100.1.7 68857 c.2.1.6 68858 1a8i 842 2.28e+00 1a8i c.87.1.4 35490 1otfA 62 2.36e+00 1otfA d.80.1.1 39820 1mpgA 282 2.61e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 1vcbA 118 2.75e+00 1vcbA d.15.1.1 37603 1rqtA 37 2.76e+00 2rslA 140 2.85e+00 2rslA c.53.1.1 33345 1b5tA 275 2.86e+00 1b5tA c.1.23.1 29676 1cxpA 104 2.90e+00 1d2vA a.93.1.2 18695 1d2vA 104 2.90e+00 1d2vA a.93.1.2 18697 1e5xA 486 2.96e+00 c.79.1.1 59283 1dbwA 126 3.04e+00 1dbwA c.23.1.1 31095 1afwA 393 3.17e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1jidA 128 3.35e+00 d.201.1.1 66735 1nvpB 57 3.51e+00 1vom 762 3.58e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1eluA 390 3.65e+00 1elqA c.67.1.3 34434 1elqA 390 3.72e+00 1elqA c.67.1.3 34436 1nh2B 53 4.05e+00 1clxA 347 4.79e+00 1taxA c.1.8.3 28899 1d1gA 168 5.02e+00 1d1gA c.71.1.1 34889 1qi9A 556 5.24e+00 1qhbA a.111.1.2 19053 1fm0D 81 5.39e+00 1fmaD d.15.3.1 37642 1qczA 169 5.49e+00 1qczA c.23.8.1 31276 1nw3A 416 5.53e+00 c.66.1.31 86288 1p3wA 404 5.59e+00 c.67.1.3 87752 1ofgA 381 5.71e+00 1ofgA c.2.1.3 30064 d.81.1.5 39979 1gu7A 364 5.85e+00 b.35.1.2 83321 c.2.1.1 83322 1q45A 391 5.97e+00 1b25A 619 6.10e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1bi5A 389 6.23e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1mdbA 539 6.25e+00 e.23.1.1 79008 1sra 151 6.53e+00 1sra a.39.1.3 17190 1m3kA 392 6.65e+00 c.95.1.1 78565 c.95.1.1 78566 1m4tA 392 6.65e+00 c.95.1.1 78617 c.95.1.1 78618 1n62B 809 6.69e+00 d.41.1.1 80092 d.133.1.1 80093 1qj2B 809 6.94e+00 1qj2B 1qflA 389 7.15e+00 1afwA c.95.1.1 35908 c.95.1.1 35909 1bu8A 452 7.42e+00 1gpl b.12.1.2 23647 c.69.1.19 34795 1cby 259 7.67e+00 1cby d.103.1.1 40705 1ebmA 317 7.68e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1rkqA 282 7.82e+00 1g8mA 593 7.90e+00 1g8mA c.24.1.3 60371 c.97.2.1 60372 1m3qA 317 8.14e+00 1nv8A 284 8.68e+00 c.66.1.30 86224 1ow4A 129 8.71e+00 1s0yA 76 8.74e+00 1t8hA 277 9.12e+00 1hnjA 317 9.41e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 1o4sA 389 1.02e+01 c.67.1.1 86620 3kvt 115 1.05e+01 1t1dA d.42.1.2 38642 1lmb3 92 1.06e+01 1lmb3 1se9A 126 1.06e+01 1qlmA 316 1.07e+01 1qlmA d.147.1.1 41765 1hyhA 309 1.08e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1mwwA 128 1.08e+01 1dxrC 336 1.10e+01 6prcC a.138.1.2 19670 1lngA 87 1.11e+01 d.201.1.1 74045 1pyaB 228 1.13e+01 1pyaB 1h72C 296 1.20e+01 d.14.1.5 60712 d.58.26.1 60713 1dd9A 338 1.20e+01 1dd9A e.13.1.1 43254 1or0A 160 1.22e+01 1f6yA 262 1.23e+01 1f6yA c.1.21.2 29673 1oeyA 83 1.25e+01 1fiqB 350 1.27e+01 1fiqB d.87.2.1 40229 d.145.1.3 41760 1g99A 408 1.28e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1ku1A 230 1.33e+01 a.118.3.1 72996 1pujA 282 1.36e+01 c.37.1.8 88294 1kq3A 376 1.39e+01 e.22.1.2 68790 1stfI 98 1.46e+01 1stfI d.17.1.2 38006 1xyzA 347 1.47e+01 1taxA c.1.8.3 28804 1fwkA 296 1.48e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1ixkA 315 1.49e+01 1gpl 432 1.51e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 2trcP 217 1.53e+01 1b9yC c.47.1.6 33051 1hzpA 335 1.56e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1oj4A 283 1.59e+01 1guzA 310 1.59e+01 c.2.1.5 65586 d.162.1.1 65587 1alo 907 1.60e+01 1alo 1o22A 170 1.66e+01 d.238.1.1 86557 1pbyA 489 1.69e+01 1s0yB 71 1.78e+01 1hlrA 907 1.80e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1ur1A 378 1.81e+01 1azsA 220 1.91e+01 1azsA d.58.29.1 39416 1io7A 368 1.92e+01 1f4tA a.104.1.1 18971 1thfD 253 1.96e+01 1thfD c.1.2.1 28535 1pl8A 356 1.96e+01 1n91A 108 1.97e+01 d.206.1.1 80326 1pbgA 468 2.02e+01 1e70M c.1.8.4 28946 1gz6A 319 2.03e+01 c.2.1.2 76410 1p0yA 444 2.05e+01 a.166.1.1 87654 b.85.7.3 87655 1nw1A 429 2.07e+01 d.144.1.8 86286 1qrrA 394 2.08e+01 1qrrA c.2.1.2 29824 1sedA 117 2.08e+01 1eudB 396 2.13e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1e4yA 214 2.15e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1gu2A 124 2.16e+01 a.3.1.1 76348 1guqA 348 2.18e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 1i24A 404 2.18e+01 c.2.1.2 83663 1ny6A 267 2.22e+01 1ff9A 450 2.26e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1mlwA 301 2.27e+01 d.178.1.1 79289 1rb9 53 2.28e+01 1rb9 g.41.5.1 45214 1ev0A 58 2.28e+01 1ev0A d.71.1.1 39594 1reqA 727 2.32e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1j3vA 289 2.32e+01 1ejbA 168 2.33e+01 1rvv1 c.16.1.1 59417 1lm6A 215 2.36e+01 d.167.1.1 84628 1eu8A 409 2.40e+01 1eu8A c.94.1.1 59502 1j6wA 175 2.40e+01 1j98A d.185.1.2 62663 1ct5A 256 2.44e+01 1ct5A c.1.6.2 28663 1mnaA 298 2.53e+01 c.69.1.22 79322 1ogwA 76 2.54e+01 d.15.1.1 87001 1mnnA 340 2.56e+01 b.2.5.7 79324 1iro 54 2.56e+01 1rb9 g.41.5.1 45223 1ubi 76 2.58e+01 1ubi d.15.1.1 37584 1l5wA 796 2.66e+01 c.87.1.4 73605 1oxkB 134 2.75e+01 1f83A 425 2.79e+01 1f82A d.92.1.7 40306 1uc2A 481 2.81e+01 1uekA 275 2.81e+01 d.14.1.5 88483 d.58.26.5 88484 1np6A 174 2.85e+01 c.37.1.10 85954 1go3F 107 2.85e+01 a.60.8.2 65407 1gx1A 160 2.86e+01 d.79.5.1 70675 1h5qA 265 2.86e+01 1cydA c.2.1.2 60643 1e1hA 287 2.88e+01 d.92.1.7 83167 1fo4A 1332 2.92e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1h2rL 534 2.93e+01 1h2rL e.18.1.1 43298 1cex 214 2.97e+01 1cex c.23.9.1 31285 1div 149 3.02e+01 1div d.99.1.1 40692 d.100.1.1 40693 1ka2A 499 3.04e+01 d.92.1.5 77305 1vh7A 265 3.10e+01 1vi2A 300 3.12e+01 1ebfA 358 3.18e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1j33A 335 3.22e+01 c.39.1.1 77069 1gx3A 284 3.30e+01 d.3.1.5 70678 1ne2A 200 3.32e+01 c.66.1.32 85586 1e7uA 961 3.38e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1rdg 53 3.41e+01 1rb9 g.41.5.1 45221 1j7lA 264 3.45e+01 d.144.1.6 62697 1f08A 148 3.52e+01 1f08A d.89.1.2 59564 1dxsA 80 3.53e+01 1cokA a.60.1.2 17944 1ubkL 534 3.53e+01 e.18.1.1 88422 1ad4A 266 3.53e+01 1aj2 c.1.21.1 29670 1js3A 486 3.59e+01 c.67.1.6 67215 1ryoA 327 3.60e+01 1nbwA 607 3.62e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1jqnA 883 3.66e+01 c.1.12.3 77159 1htjF 210 3.66e+01 1htjF a.91.1.1 61254 1iw0A 215 3.66e+01 a.132.1.1 83720 1n9eA 787 3.70e+01 1e0eA 55 3.71e+01 1wjcA a.4.10.1 59147 1fiy 883 3.73e+01 1fiy c.1.12.3 29307 1reoA 486 3.80e+01 1pjr 724 3.82e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1kmdA 117 3.86e+01 d.189.1.1 72744 1m1zA 513 3.87e+01 c.26.2.1 78457 d.153.1.1 78458 1nnhA 294 3.94e+01 1su8A 636 3.99e+01 1neq 74 3.99e+01 1neq a.35.1.2 17063 1jhfA 202 4.00e+01 a.4.5.2 63057 b.87.1.1 63058