# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1kfuS 184 5.06e-02 a.39.1.8 68574 1alvA 173 8.98e-02 1alvA a.39.1.8 17370 3fruA 269 1.87e-01 1agdA b.1.1.2 20657 d.19.1.1 38150 1krhA 338 7.17e-01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1q7lA 198 9.46e-01 1bupA 386 9.90e-01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1ba1 386 1.13e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1kay 381 1.38e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1bueA 265 2.12e+00 1btl e.3.1.1 42727 1ee9A 320 2.36e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1edzA 320 2.69e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ewjA 126 3.46e+00 1ecsA d.32.1.2 59526 1auz 116 4.36e+00 1auz c.13.2.1 30883 1jvr 137 4.45e+00 1jvr a.61.1.2 18132 1eucB 396 4.93e+00 2scuB c.23.4.1 31149 d.142.1.4 41570 1qh0A 295 5.33e+00 b.43.4.2 68891 c.25.1.1 68892 1ogiA 303 5.35e+00 1eudB 396 5.41e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1b2rA 304 5.43e+00 1fnc b.43.4.2 25648 c.25.1.1 31538 1go2A 304 5.46e+00 b.43.4.2 76243 c.25.1.1 76244 1que 303 5.61e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1nffA 260 5.69e+00 c.2.1.2 80457 1f3iA 481 6.07e+00 1b7eA 1ecsA 126 6.22e+00 1ecsA d.32.1.2 59407 1v4vA 376 7.93e+00 1ako 268 8.16e+00 1ako d.151.1.1 41779 1ki1B 352 9.75e+00 a.87.1.1 72497 b.55.1.1 72498 1cfzA 162 1.14e+01 1cfzA c.56.1.1 33754 1op0A 234 1.21e+01 1mwmA 320 1.22e+01 c.55.1.1 79580 c.55.1.1 79581 1ufoA 238 1.28e+01 1i0rA 169 1.31e+01 1i0rA b.45.1.2 61489 1i0sA 169 1.31e+01 1i0rA b.45.1.2 61491 1ltqA 301 1.32e+01 c.108.1.9 78208 c.37.1.1 78209 1gt8A 1025 1.35e+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 1muhA 481 1.35e+01 c.55.3.4 79485 1h7wB 1025 1.39e+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 1.39e+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 1h6kA 757 1.40e+01 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1h7wA 1025 1.40e+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 1h7xC 1025 1.40e+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 1gteD 1025 1.41e+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 1.41e+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 1h7xD 1025 1.41e+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 1.42e+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 1gthA 1025 1.47e+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 1gt8B 1025 1.56e+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 1suh 146 1.58e+01 1edhA b.1.6.1 22206 1gt8D 1025 1.59e+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 1taq 832 1.65e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1un8A 552 1.68e+01 1esgA 213 1.75e+01 1bam c.52.1.3 33286 1rypD 241 1.75e+01 1rypD d.153.1.4 41935 1k6xA 352 1.76e+01 c.2.1.2 68238 1b4uB 302 1.77e+01 1bouB c.56.6.1 33861 1bouB 302 1.83e+01 1bouB c.56.6.1 33859 1gteA 1025 1.90e+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 2trxA 108 1.91e+01 1thx c.47.1.1 32719 1okcA 297 1.93e+01 1edhA 226 1.93e+01 1edhA b.1.6.1 22198 b.1.6.1 22199 1lhpA 312 2.13e+01 c.72.1.5 77960 1j99A 293 2.16e+01 c.37.1.5 71618 1ohvA 472 2.22e+01 1gthC 1025 2.27e+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 1kebA 108 2.33e+01 c.47.1.1 77341 1gt8C 1025 2.34e+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 1gthB 1025 2.36e+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 1fo5A 85 2.43e+01 1fo5A c.47.1.1 59922 1e3yA 104 2.44e+01 1fadA a.77.1.2 18426 1k6iA 352 2.44e+01 c.2.1.2 68223 1gthD 1025 2.52e+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 1aho 64 2.76e+01 1aho g.3.7.1 44127 1hrdA 449 2.81e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1lddA 74 2.87e+01 a.4.5.34 73841 1mogA 67 2.92e+01 d.230.2.1 85034 1ln1A 214 2.99e+01 d.129.3.2 74038 1bgvA 449 3.01e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1k89 449 3.03e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1obwA 175 3.03e+01 2prd b.40.5.1 25416 1i40A 175 3.06e+01 b.40.5.1 66024 1gtxA 472 3.35e+01 1gtxA c.67.1.4 34464 1d7kA 421 3.42e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1j3mA 129 3.45e+01 1ewqA 765 3.55e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1m4vA 204 3.55e+01 b.40.2.2 74459 d.15.6.1 74460 1et0A 269 3.64e+01 1et0A e.17.1.1 43289 1vjuA 309 3.69e+01 1i2kA 269 3.75e+01 1j96A 323 3.90e+01 c.1.7.1 71616 1ikpA 613 3.91e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1spbP 78 3.94e+01 1scjB d.58.3.2 39068 1fecA 490 3.98e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176