# List of top-scoring protein chains for 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 1rypK 198 1.11e+00 d.153.1.4 41879 1abn 315 1.94e+00 1frb c.1.7.1 28683 1az1 315 1.96e+00 1frb c.1.7.1 28677 2acu 315 1.96e+00 1frb c.1.7.1 28676 2acr 315 1.97e+00 1frb c.1.7.1 28674 1ads 315 1.97e+00 1frb c.1.7.1 28671 1el3A 316 1.97e+00 1frb c.1.7.1 28672 1llp 343 2.52e+00 1arv a.93.1.1 18578 1iruE 241 3.96e+00 1b82A 351 4.54e+00 1arv a.93.1.1 18583 1yat 113 5.39e+00 1fkj d.26.1.1 38427 1b85A 351 6.23e+00 1arv a.93.1.1 18581 1eavA 162 6.99e+00 c.57.1.1 64877 1cf7A 76 7.11e+00 1cf7B a.4.5.17 16151 1hrb 113 7.83e+00 2mhr a.24.4.1 16580 1mmg 762 8.12e+00 1lvk b.34.3.1 24579 c.37.1.9 32176 1vom 762 8.22e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1mnd 762 8.22e+00 1lvk b.34.3.1 24591 c.37.1.9 32188 1lvk 762 8.36e+00 1lvk b.34.3.1 24576 c.37.1.9 32173 1prcC 336 8.69e+00 6prcC a.138.1.2 19674 1dxrC 336 8.69e+00 6prcC a.138.1.2 19670 6prcC 336 8.69e+00 6prcC a.138.1.2 19671 1qfgA 725 9.11e+00 1by5A f.4.3.3 43803 1fi1A 707 9.11e+00 1by5A f.4.3.3 59844 1qpaA 345 9.73e+00 1arv a.93.1.1 18585 1mmn 762 9.91e+00 1lvk b.34.3.1 24582 c.37.1.9 32179 2pth 193 1.05e+01 2pth c.56.3.1 33793 1dl2A 511 1.05e+01 1dl2A a.102.2.1 18844 1b80A 351 1.09e+01 1arv a.93.1.1 18579 1g8xA 1010 1.11e+01 1lvk k.1.1.1 46378 1i4yA 114 1.16e+01 2mhr a.24.4.1 61738 1ikpA 613 1.20e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1ikqA 613 1.23e+01 b.29.1.7 66185 d.166.1.1 66186 f.1.5.1 66187 1fchA 368 1.24e+01 1fchA a.118.8.1 19212 1civA 385 1.31e+01 1bmdA c.2.1.5 30134 d.162.1.1 42101 1ct9A 553 1.35e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 2leu 37 1.43e+01 2leu j.3.1.1 46068 1czrA 169 1.55e+01 1rcf c.23.5.1 31187 1k3aA 299 1.55e+01 d.144.1.2 68098 1gkuB 1054 1.58e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1gl9B 1054 1.66e+01 c.37.1.16 65291 c.37.1.16 65292 e.10.1.1 65293 1i4zA 114 1.71e+01 2mhr a.24.4.1 61746 1jqhA 308 1.74e+01 1hu3A 260 1.77e+01 1hu3A a.118.1.2 19137 1jwyA 776 1.77e+01 b.34.3.1 67399 c.37.1.9 67400 1fmvA 761 1.78e+01 1lvk b.34.3.1 24580 c.37.1.9 32177 1d0yA 761 1.79e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1mma 762 1.81e+01 1lvk b.34.3.1 24587 c.37.1.9 32184 1gff2 177 2.03e+01 2bpa2 1ef8A 261 2.07e+01 1ef8A c.14.1.3 30921 2e2c 156 2.21e+01 1u9aA d.20.1.1 38336 1kgsA 225 2.39e+01 a.4.6.1 68596 c.23.1.1 68597 1g71A 347 2.49e+01 1g71A e.16.1.1 43268 1f7dA 136 2.60e+01 1dun b.85.4.1 28353 1dutA 133 2.61e+01 1dun b.85.4.1 28355 1qffA 725 2.66e+01 1by5A f.4.3.3 43804 1kobA 387 2.68e+01 1tkiA d.144.1.1 41640 1boc 76 2.76e+01 4icb a.39.1.1 17155 1igb 291 2.78e+01 1amp c.56.5.4 33839 1amp 291 2.78e+01 1amp c.56.5.4 33837 1qu6A 179 3.02e+01 1qu6A d.50.1.1 38784 d.50.1.1 38785 1ie5A 107 3.04e+01 b.1.1.4 62312 3crd 100 3.13e+01 3crd a.77.1.1 18429 1bmp 139 3.19e+01 2tgi g.17.1.2 44785 1ewsA 32 3.21e+01 1ewsA g.9.1.1 59534 1fltX 95 3.23e+01 1fltX b.1.1.4 21765 1fltY 95 3.23e+01 1fltX b.1.1.4 21766 1sceA 112 3.24e+01 1puc d.97.1.1 40676 1i6oB 220 3.30e+01 1ddzA c.53.2.1 61847 1hy5A 136 3.31e+01 a.24.11.1 65955 1a7vA 125 3.37e+01 1cpq a.24.3.2 16562 1czoA 169 3.45e+01 1rcf c.23.5.1 31188 1ymv 129 3.46e+01 3chy c.23.1.1 31045 1cznA 169 3.54e+01 1rcf c.23.5.1 31181 1ofv 169 3.54e+01 1rcf c.23.5.1 31184 1i6pA 220 3.58e+01 1ddzA c.53.2.1 61848 1qsvA 101 3.64e+01 1fltX b.1.1.4 21771 1dhy 292 3.67e+01 1han d.32.1.3 38504 d.32.1.3 38505 1gdgA 293 3.69e+01 d.32.1.3 65179 d.32.1.3 65180 1qpoA 284 3.72e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597 1cojA 212 3.84e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1ddzA 496 3.91e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1xymA 386 3.91e+01 4xis c.1.15.3 29415 1vpu 45 3.97e+01 1vpu g.34.1.1 44977 1i7kA 179 3.99e+01 1u9aA d.20.1.1 61889 1ryt 190 3.99e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1xyaA 386 3.99e+01 4xis c.1.15.3 29411