# List of top-scoring protein chains for T0240.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 1ihrA 76 5.17e-16 1ihrA d.212.1.2 62392 1lr0A 129 1.80e-04 d.212.1.1 74213 1tolA 222 7.52e-01 1g3p b.37.1.1 24790 d.212.1.1 39587 1bp3B 211 2.53e+00 1axiB b.1.2.1 22031 b.1.2.1 22032 1ja9A 274 3.40e+00 c.2.1.2 62817 1fchA 368 4.45e+00 1fchA a.118.8.1 19212 1oyeA 1049 4.57e+00 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1iwgA 1053 4.61e+00 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1ep1B 261 4.87e+00 1ep2B b.43.4.2 25665 c.25.1.3 31555 1ep3B 262 4.88e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1o0uA 429 5.33e+00 c.118.1.1 80743 1awqA 164 6.69e+00 2cpl b.62.1.1 27461 2cpl 165 6.79e+00 2cpl b.62.1.1 27420 1m9eA 164 6.84e+00 b.62.1.1 84894 1axaA 99 8.65e+00 1hvc b.50.1.1 26633 1j6qA 136 8.65e+00 b.40.9.1 77091 1mwwA 128 8.78e+00 unknown_sccs -10451 1f5mA 180 1.13e+01 1f5mB d.110.2.1 40895 1pboA 159 1.13e+01 1obpA b.60.1.1 27094 1gt1A 159 1.32e+01 b.60.1.1 -4436 1g85A 159 1.38e+01 b.60.1.1 70159 1obpA 159 1.38e+01 1obpA b.60.1.1 27092 1lci 550 1.43e+01 1lci e.23.1.1 43349 1j8kA 94 1.45e+01 b.1.2.1 66439 1p4pA 145 1.52e+01 b.76.1.1 -4738 1b9kA 238 1.86e+01 1qtsA b.1.10.1 22315 d.105.1.1 40791 1kyfA 247 1.88e+01 b.1.10.1 73220 d.105.1.1 73221 1iwmA 186 1.98e+01 b.125.1.2 83758 1hefE 99 2.07e+01 1fmb b.50.1.1 26637 1rk4A 243 2.11e+01 a.45.1.1 -948 c.47.1.5 -7473 1ffkF 157 2.13e+01 1ffkF d.41.4.1 38628 1jj2H 167 2.13e+01 1ffkF d.41.4.1 63093 1qezA 173 2.13e+01 2prd b.40.5.1 25410 1pjcA 361 2.20e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1k0mA 241 2.21e+01 a.45.1.1 67949 c.47.1.5 67950 1k5jA 124 2.23e+01 b.121.3.1 68201 1jlvA 209 2.30e+01 a.45.1.1 71729 c.47.1.5 71730 1blu 82 2.31e+01 2fdn d.58.1.1 38948 1n3lA 372 2.35e+01 c.26.1.1 79966 1mk0A 97 2.43e+01 d.226.1.1 79216 1v9pA 584 2.49e+01 a.60.2.2 -1017 b.40.4.6 -3952 d.142.2.2 -11248 1ct5A 256 2.69e+01 1ct5A c.1.6.2 28663 1b54 257 2.70e+01 1ct5A c.1.6.2 28664 1nf1A 333 2.73e+01 1nf1A a.116.1.2 19110 1aaqA 99 2.80e+01 1fmb b.50.1.1 26688 1ffkI 194 2.81e+01 1ffkI d.12.1.2 37494 1metA 99 2.81e+01 1fmb b.50.1.1 26593 1tcxA 99 2.81e+01 1hvc b.50.1.1 26748 1hvsA 99 2.82e+01 1fmb b.50.1.1 26597 1fpn2 261 2.83e+01 1aym2 1gnmA 99 2.85e+01 1hvc b.50.1.1 26672 1odxA 99 2.87e+01 1fmb b.50.1.1 26577 1sq6A 253 2.88e+01 c.56.2.1 -7852 1ov3C 18 2.94e+01 1ktgA 138 2.96e+01 d.113.1.1 72972 1gnnA 99 2.98e+01 1fmb b.50.1.1 26676 1hvhA 99 3.00e+01 1hvc b.50.1.1 26585 1hivA 99 3.02e+01 1fmb b.50.1.1 26555 1nh0A 99 3.02e+01 b.50.1.1 -4299 3tlhA 99 3.04e+01 1hvc b.50.1.1 26609 1fwqA 123 3.05e+01 1fwqA b.88.1.1 28394 3mddA 385 3.11e+01 3mdeA a.29.3.1 16592 e.6.1.1 42853 1q1gA 276 3.12e+01 c.56.2.1 -7846 1d4sA 99 3.13e+01 1hvc b.50.1.1 26692 1bwbA 99 3.13e+01 1fmb b.50.1.1 26517 1l23 164 3.13e+01 1l92 d.2.1.3 36624 2mhaA 270 3.14e+01 1agdA b.1.1.2 20803 d.19.1.1 38291 1merA 99 3.16e+01 1hvc b.50.1.1 26523 1lzqA 99 3.17e+01 b.50.1.1 84741 1fzkA 274 3.18e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1lk2A 274 3.18e+01 b.1.1.2 -2610 d.19.1.1 -9365 1uf9A 203 3.19e+01 c.37.1.1 -7014 1namH 275 3.22e+01 b.1.1.2 85490 d.19.1.1 85491 1n59A 276 3.23e+01 b.1.1.2 80008 d.19.1.1 80009 1kj2H 277 3.23e+01 b.1.1.2 72563 d.19.1.1 72564 1nanH 278 3.25e+01 b.1.1.2 85493 d.19.1.1 85494 1g8iA 190 3.25e+01 1rec a.39.1.5 60363 1qqcA 773 3.25e+01 1tgoA c.55.3.5 33724 e.8.1.1 43013 1fo0H 276 3.26e+01 1agdA b.1.1.2 20797 d.19.1.1 38288 1d5aA 733 3.28e+01 1tgoA c.55.3.5 33723 e.8.1.1 43012 1kj3H 279 3.29e+01 b.1.1.2 72569 d.19.1.1 72570 1ln0A 97 3.34e+01 d.226.1.1 78099 1od0A 468 3.35e+01 c.1.8.4 86818 1hxrA 115 3.42e+01 1fwqA b.88.1.1 28392 1oioA 178 3.43e+01 b.2.3.5 -2884 1ddkA 220 3.49e+01 1a7tA d.157.1.1 42056 1lv1A 203 3.50e+01 b.50.1.1 74273 b.50.1.1 74274 1r9dA 787 3.50e+01 1jjeA 222 3.50e+01 1a7tA d.157.1.1 63117 1dvpA 220 3.51e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1a9r 282 3.52e+01 1b8oA c.56.2.1 33767 1b8oA 284 3.52e+01 1b8oA c.56.2.1 33762 1g6lA 203 3.52e+01 1hvc b.50.1.1 26559 b.50.1.1 26560 1a9t 284 3.52e+01 1b8oA c.56.2.1 33765 1s7qA 348 3.54e+01 b.1.1.2 -2613 d.19.1.1 -9368 1g5cA 170 3.54e+01 1g5cA c.53.2.1 60264 1vfn 281 3.57e+01 1b8oA c.56.2.1 33773 1jjtA 228 3.57e+01 1a7tA d.157.1.1 63139 1v48A 289 3.59e+01 1a9s 289 3.59e+01 1b8oA c.56.2.1 33768 3pnp 289 3.59e+01 1b8oA c.56.2.1 33763 1hngA 176 3.60e+01 1cczA b.1.1.1 19752 b.1.1.3 21681 1lvuA 289 3.63e+01 c.56.2.1 -7704 1fxuA 289 3.64e+01 1b8oA c.56.2.1 33772 1ohzB 60 3.82e+01 a.139.1.1 -147 1vkdA 338 3.94e+01 1d2vC 466 3.97e+01 1mhlC 1p9rA 418 3.97e+01 c.37.1.11 -7142 1fnqL 281 3.97e+01 6prcL f.26.1.1 59918