# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 7.26e-02 a.39.1.8 68574 1alvA 173 1.19e-01 1alvA a.39.1.8 17370 3fruA 269 2.90e-01 1agdA b.1.1.2 20657 d.19.1.1 38150 1nffA 260 5.74e-01 c.2.1.2 80457 1q7lA 198 1.01e+00 1ba1 386 2.07e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1krhA 338 2.11e+00 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1bupA 386 2.81e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1kay 381 3.30e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1edzA 320 3.66e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ee9A 320 3.92e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1qh0A 295 4.11e+00 b.43.4.2 68891 c.25.1.1 68892 1b2rA 304 4.58e+00 1fnc b.43.4.2 25648 c.25.1.1 31538 1go2A 304 4.61e+00 b.43.4.2 76243 c.25.1.1 76244 1que 303 4.69e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1eudB 396 4.80e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1ogiA 303 5.02e+00 1eucB 396 5.45e+00 2scuB c.23.4.1 31149 d.142.1.4 41570 1ecsA 126 5.81e+00 1ecsA d.32.1.2 59407 1ewjA 126 5.92e+00 1ecsA d.32.1.2 59526 1auz 116 6.01e+00 1auz c.13.2.1 30883 1k6xA 352 6.86e+00 c.2.1.2 68238 1un8A 552 6.98e+00 1muhA 481 7.21e+00 c.55.3.4 79485 1ohvA 472 7.63e+00 1v4vA 376 7.91e+00 1thtA 305 7.99e+00 1thtA c.69.1.13 34711 1h6kA 757 8.16e+00 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1bouB 302 8.52e+00 1bouB c.56.6.1 33859 1edhA 226 9.03e+00 1edhA b.1.6.1 22198 b.1.6.1 22199 1b4uB 302 9.08e+00 1bouB c.56.6.1 33861 1k6iA 352 9.42e+00 c.2.1.2 68223 1suh 146 9.67e+00 1edhA b.1.6.1 22206 1bueA 265 9.89e+00 1btl e.3.1.1 42727 1ln1A 214 1.04e+01 d.129.3.2 74038 1ako 268 1.05e+01 1ako d.151.1.1 41779 1j96A 323 1.07e+01 c.1.7.1 71616 1f3iA 481 1.08e+01 1b7eA 1i7dA 659 1.10e+01 1d6mA e.10.1.1 61886 1h7wB 1025 1.10e+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 1h7xC 1025 1.11e+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 1h7wA 1025 1.11e+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 1gteD 1025 1.12e+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 1.13e+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 1h7xA 1025 1.13e+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 1h7wD 1025 1.13e+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 1gt8A 1025 1.13e+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 1.15e+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 1h7xD 1025 1.16e+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 1nw1A 429 1.19e+01 d.144.1.8 86286 1gthA 1025 1.20e+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 1d7kA 421 1.20e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1dgsA 667 1.28e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1gtxA 472 1.30e+01 1gtxA c.67.1.4 34464 1gteA 1025 1.34e+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 1ufoA 238 1.36e+01 1gt8B 1025 1.45e+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 1i40A 175 1.45e+01 b.40.5.1 66024 2trxA 108 1.48e+01 1thx c.47.1.1 32719 1obwA 175 1.48e+01 2prd b.40.5.1 25416 1ki1B 352 1.50e+01 a.87.1.1 72497 b.55.1.1 72498 1gthC 1025 1.56e+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 1gthB 1025 1.62e+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 1gt8C 1025 1.67e+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 1t8hA 277 1.67e+01 1gthD 1025 1.68e+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 1mwmA 320 1.70e+01 c.55.1.1 79580 c.55.1.1 79581 2hdhA 293 1.72e+01 2hdhA a.100.1.3 18795 c.2.1.6 30199 1j99A 293 1.82e+01 c.37.1.5 71618 1m4vA 204 1.86e+01 b.40.2.2 74459 d.15.6.1 74460 1q4uA 151 1.90e+01 1okcA 297 1.94e+01 1ayaA 101 1.99e+01 1qadA d.93.1.1 40460 1op0A 234 2.04e+01 1psdA 409 2.07e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1e9iA 431 2.09e+01 c.1.11.1 64818 d.54.1.1 64819 1f0yA 302 2.09e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197 1o12A 376 2.12e+01 b.92.1.5 80758 c.1.9.10 80759 1lhpA 312 2.17e+01 c.72.1.5 77960 1kebA 108 2.23e+01 c.47.1.1 77341 1f8gA 384 2.33e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1d6mA 653 2.33e+01 1d6mA e.10.1.1 43248 1jvr 137 2.37e+01 1jvr a.61.1.2 18132 1l7dA 384 2.42e+01 c.2.1.4 77774 c.23.12.2 77775 1ikpA 613 2.47e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1e3yA 104 2.54e+01 1fadA a.77.1.2 18426 2cmd 312 2.58e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1musA 477 2.61e+01 c.55.3.4 79494 1ipwA 175 2.68e+01 2prd b.40.5.1 25427 1l2uA 245 2.70e+01 c.1.2.3 73516 1fo5A 85 2.80e+01 1fo5A c.47.1.1 59922 1bea 127 2.84e+01 1bea a.52.1.2 17826 1xgsA 295 2.89e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1bfa 134 2.92e+01 1bea a.52.1.2 17827 1g87A 614 3.00e+01 a.102.1.2 83275 b.2.2.2 83276 1o6jA 150 3.03e+01 c.47.1.10 81089 1rypD 241 3.04e+01 1rypD d.153.1.4 41935 1dzfA 215 3.08e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1spbP 78 3.21e+01 1scjB d.58.3.2 39068 1mogA 67 3.35e+01 d.230.2.1 85034 7odcA 424 3.41e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1k89 449 3.46e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1hrdA 449 3.50e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1qyiA 384 3.57e+01 1i0rA 169 3.61e+01 1i0rA b.45.1.2 61489 1i0sA 169 3.61e+01 1i0rA b.45.1.2 61491 3adk 195 3.63e+01 1zin c.37.1.1 31885 1bgvA 449 3.66e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1sjdA 368 3.71e+01 1zac 90 3.71e+01 1ncx a.39.1.5 17236 1q40B 219 3.74e+01 1tml 286 3.76e+01 1tml c.6.1.1 30656 1vjuA 309 3.88e+01 2ptd 298 3.92e+01 2plc c.1.18.2 29605 3bamA 213 3.97e+01 1bam c.52.1.3 33288 153l 185 3.99e+01 153l d.2.1.5 36984