# 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 3fruA 269 1.54e-01 1agdA b.1.1.2 20657 d.19.1.1 38150 1kfuS 184 2.12e-01 a.39.1.8 68574 1nffA 260 4.31e-01 c.2.1.2 80457 1alvA 173 4.78e-01 1alvA a.39.1.8 17370 1q7lA 198 2.09e+00 1kay 381 2.18e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1ba1 386 2.21e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bupA 386 2.21e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1edzA 320 2.32e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1auz 116 2.99e+00 1auz c.13.2.1 30883 1ee9A 320 4.00e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1muhA 481 4.39e+00 c.55.3.4 79485 1ecsA 126 5.28e+00 1ecsA d.32.1.2 59407 1ewjA 126 7.24e+00 1ecsA d.32.1.2 59526 1mldA 314 8.27e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1f3iA 481 9.21e+00 1b7eA 1t8hA 277 9.77e+00 1b4uB 302 1.05e+01 1bouB c.56.6.1 33861 1mwmA 320 1.06e+01 c.55.1.1 79580 c.55.1.1 79581 1et0A 269 1.07e+01 1et0A e.17.1.1 43289 1i0rA 169 1.07e+01 1i0rA b.45.1.2 61489 1i0sA 169 1.07e+01 1i0rA b.45.1.2 61491 1krhA 338 1.08e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1bouB 302 1.09e+01 1bouB c.56.6.1 33859 1q7zA 566 1.10e+01 1thtA 305 1.19e+01 1thtA c.69.1.13 34711 1h6kA 757 1.19e+01 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1rypD 241 1.22e+01 1rypD d.153.1.4 41935 1bueA 265 1.23e+01 1btl e.3.1.1 42727 1ki1B 352 1.34e+01 a.87.1.1 72497 b.55.1.1 72498 1edhA 226 1.40e+01 1edhA b.1.6.1 22198 b.1.6.1 22199 1lhpA 312 1.43e+01 c.72.1.5 77960 1ohvA 472 1.48e+01 1un8A 552 1.48e+01 1v4vA 376 1.49e+01 1ako 268 1.53e+01 1ako d.151.1.1 41779 1d7kA 421 1.75e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1musA 477 1.83e+01 c.55.3.4 79494 1gtxA 472 1.85e+01 1gtxA c.67.1.4 34464 1dgsA 667 1.90e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1i40A 175 1.93e+01 b.40.5.1 66024 1op0A 234 1.99e+01 1i2kA 269 2.03e+01 1o12A 376 2.03e+01 b.92.1.5 80758 c.1.9.10 80759 1i7dA 659 2.13e+01 1d6mA e.10.1.1 61886 1fezA 256 2.17e+01 1fezA c.108.1.3 43343 1kebA 108 2.20e+01 c.47.1.1 77341 1k6iA 352 2.22e+01 c.2.1.2 68223 1gt8A 1025 2.31e+01 a.1.2.2 70418 c.1.4.1 70419 c.3.1.1 70420 c.4.1.1 70421 d.58.1.5 70422 1gt8D 1025 2.36e+01 a.1.2.2 70433 c.1.4.1 70434 c.3.1.1 70435 c.4.1.1 70436 d.58.1.5 70437 1gthD 1025 2.38e+01 a.1.2.2 70498 c.1.4.1 70499 c.3.1.1 70500 c.4.1.1 70501 d.58.1.5 70502 7odcA 424 2.38e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1h7wB 1025 2.42e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1h7wD 1025 2.46e+01 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1h7wA 1025 2.49e+01 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 1jvr 137 2.49e+01 1jvr a.61.1.2 18132 1h7xC 1025 2.51e+01 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1h7xD 1025 2.54e+01 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1h7xA 1025 2.55e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1gteD 1025 2.59e+01 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1h7xB 1025 2.61e+01 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1qh0A 295 2.66e+01 b.43.4.2 68891 c.25.1.1 68892 1que 303 2.66e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1b2rA 304 2.68e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1gthA 1025 2.68e+01 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1go2A 304 2.70e+01 b.43.4.2 76243 c.25.1.1 76244 1b9dA 163 2.78e+01 1b9dA c.55.3.2 33649 1obwA 175 2.79e+01 2prd b.40.5.1 25416 1gthC 1025 2.79e+01 a.1.2.2 70493 c.1.4.1 70494 c.3.1.1 70495 c.4.1.1 70496 d.58.1.5 70497 1s1pA 331 2.86e+01 1d6mA 653 2.87e+01 1d6mA e.10.1.1 43248 1gt8B 1025 2.89e+01 a.1.2.2 70423 c.1.4.1 70424 c.3.1.1 70425 c.4.1.1 70426 d.58.1.5 70427 1tof 112 2.96e+01 1erv c.47.1.1 32733 2trxA 108 2.99e+01 1thx c.47.1.1 32719 1avk 638 2.99e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1eucB 396 2.99e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1eudB 396 2.99e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1k89 449 3.02e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1gteA 1025 3.04e+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 1gthB 1025 3.11e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1nlwA 80 3.13e+01 a.38.1.1 80633 1ipwA 175 3.26e+01 2prd b.40.5.1 25427 1e3yA 104 3.31e+01 1fadA a.77.1.2 18426 1f20A 435 3.36e+01 b.43.4.1 64932 c.25.1.4 64933 1pwmA 316 3.38e+01 1ads 315 3.42e+01 1frb c.1.7.1 28671 1us0A 316 3.43e+01 1b3jA 274 3.51e+01 1agdA b.1.1.2 20855 d.19.1.1 38319 1ikpA 613 3.52e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1ogiA 303 3.63e+01 1fo5A 85 3.68e+01 1fo5A c.47.1.1 59922 1gt8C 1025 3.69e+01 a.1.2.2 70428 c.1.4.1 70429 c.3.1.1 70430 c.4.1.1 70431 d.58.1.5 70432 1el3A 316 3.81e+01 1frb c.1.7.1 28672 1stfI 98 3.84e+01 1stfI d.17.1.2 38006 1f0yA 302 3.90e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197