# List of top-scoring protein chains for t2k-100-30-str2 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 1s1dA 331 4.82e-01 unknown_sccs -4566 1amuA 563 5.40e-01 1amuA e.23.1.1 43351 2aacA 177 7.77e-01 2arcA b.82.4.1 28150 1kzkA 99 9.08e-01 b.50.1.1 73371 2arcB 164 1.04e+00 2arcA b.82.4.1 28149 2arcA 164 1.04e+00 2arcA b.82.4.1 28148 1mngA 203 1.09e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1us8A 147 1.38e+00 c.37.1.12 -7194 1hvc 203 1.50e+00 1hvc b.50.1.1 26614 1difA 99 1.59e+00 1fmb b.50.1.1 26503 1k1tA 99 1.96e+00 b.50.1.1 71995 1yna 194 2.22e+00 1axkA b.29.1.11 24335 1dazC 99 2.32e+00 1hvc b.50.1.1 26501 1lci 550 2.42e+00 1lci e.23.1.1 43349 1vybA 238 2.58e+00 1kuuA 202 3.11e+00 d.153.2.1 73019 1nh0A 99 3.93e+00 b.50.1.1 -4299 1rypB 250 4.52e+00 1rypB d.153.1.4 41933 1f2tA 149 4.53e+00 1f2tA c.37.1.12 32373 1hh2P 344 4.84e+00 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1d5tA 433 4.86e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1uch 230 5.25e+00 1uch d.3.1.6 37129 1s14A 194 5.34e+00 d.122.1.2 -10973 5hvpA 99 5.36e+00 1fmb b.50.1.1 26605 1xvaA 292 5.88e+00 1xvaA c.66.1.5 34183 1xypA 190 6.27e+00 1axkA b.29.1.11 24327 1enxA 190 6.35e+00 1axkA b.29.1.11 24325 1cklB 126 6.89e+00 1cklB g.18.1.1 44853 g.18.1.1 44854 1mejA 223 7.25e+00 c.65.1.1 79029 1ugmA 125 7.36e+00 1d2gA 292 7.55e+00 1xvaA c.66.1.5 34187 1ud9A 245 7.57e+00 1o12A 376 8.03e+00 b.92.1.5 80758 c.1.9.10 80759 1ip9A 85 8.31e+00 1ip9A d.15.2.2 62638 1aszB 490 8.49e+00 1b8aA b.40.4.1 25241 d.104.1.1 40762 1suuA 312 9.23e+00 unknown_sccs -4610 1bbzE 58 9.88e+00 1bbzA b.34.2.1 24479 2gar 212 1.00e+01 2gar c.65.1.1 34161 1aj6 219 1.00e+01 1aj6 d.122.1.2 41106 1q15A 503 1.01e+01 c.26.2.1 -6625 d.153.1.1 -11400 1jb0D 138 1.07e+01 1jb0D d.187.1.1 62823 1vjjA 692 1.07e+01 b.1.18.9 -2758 b.1.5.1 -2786 b.1.5.1 -2787 d.3.1.4 -8893 1rllA 692 1.08e+01 1bncB 449 1.13e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1fkf 107 1.14e+01 1fkj d.26.1.1 38386 1fkj 107 1.14e+01 1fkj d.26.1.1 38384 1skoA 143 1.16e+01 1h4rA 314 1.17e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1bmlC 362 1.20e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1oejA 193 1.21e+01 unknown_sccs -4461 1b6rA 355 1.24e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1axkA 394 1.35e+01 1axkA b.29.1.2 24181 b.29.1.11 24315 1m4jA 142 1.36e+01 d.109.1.2 78602 1h4gA 207 1.43e+01 b.29.1.11 70863 1bncA 449 1.43e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1b8aA 438 1.43e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1t0yA 122 1.47e+01 d.15.1.1 -9151 1plr 258 1.47e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1m3jA 471 1.47e+01 f.9.1.1 -12372 1unnC 115 1.47e+01 unknown_sccs -10216 1ykfA 352 1.50e+01 1pedA b.35.1.2 24757 c.2.1.1 29773 1bkf 107 1.54e+01 1fkj d.26.1.1 38382 1bbzA 58 1.63e+01 1bbzA b.34.2.1 24477 1jkxA 212 1.63e+01 c.65.1.1 66813 1idaA 99 1.65e+01 1fmb b.50.1.1 26715 1dv2A 452 1.67e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1sefA 274 1.70e+01 1aboA 62 1.70e+01 1bbzA b.34.2.1 24474 1h1aA 191 1.72e+01 b.29.1.11 83450 1l9mA 692 1.76e+01 b.1.18.9 73732 b.1.5.1 73733 b.1.5.1 73734 d.3.1.4 73735 1qh7A 207 1.79e+01 1axkA b.29.1.11 24317 1dy9A 187 1.84e+01 1jxpA b.47.1.3 26400 1ig3A 263 1.87e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1bk1 184 1.90e+01 1axkA b.29.1.11 24340 1jb7B 260 1.96e+01 1otcB b.40.4.3 62839 1garA 212 2.00e+01 2gar c.65.1.1 34162 1jl0A 334 2.00e+01 1jenA d.156.1.1 63155 1iz5A 249 2.05e+01 d.131.1.2 83834 d.131.1.2 83835 1meoA 209 2.05e+01 c.65.1.1 79035 1rwzA 245 2.10e+01 d.131.1.2 -11106 d.131.1.2 -11107 1dv1A 449 2.16e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1glv 303 2.17e+01 1gsa c.30.1.3 31721 d.142.1.1 41480 1rypD 241 2.17e+01 1rypD d.153.1.4 41935 1giqA 413 2.19e+01 d.166.1.1 76224 d.166.1.1 76225 1n9eA 787 2.26e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1oeyA 83 2.29e+01 d.15.2.2 -9162 1al0G 175 2.47e+01 2bpa2 b.121.5.1 23275 1r62A 160 2.64e+01 1ijtA 128 2.65e+01 1bfg b.42.1.1 62510 2wrpR 107 2.65e+01 1jhgA a.4.12.1 19010 1jhgA 101 2.70e+01 1jhgA a.4.12.1 19009 1r0vA 305 2.74e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1nmtA 392 2.75e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1cr5A 189 2.77e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1pvxA 194 2.77e+01 1axkA b.29.1.11 24341 1r4wA 226 2.81e+01 unknown_sccs -7447 1s2kA 206 2.84e+01 unknown_sccs -3494 1pjxA 314 2.85e+01 1trrA 107 2.96e+01 1jhgA a.4.12.1 19017 1jx4A 352 2.96e+01 unknown_sccs -10188 unknown_sccs -11898 1bhjA 292 2.97e+01 1xvaA c.66.1.5 34189 1vom 762 2.98e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1r9fA 136 3.02e+01 unknown_sccs -10736 1e1aA 314 3.07e+01 1e1aA b.68.6.1 59155 1f8vA 355 3.07e+01 2bbvA b.121.4.4 23329 1ktjA 129 3.12e+01 b.1.18.7 72974 1poiB 260 3.12e+01 1poiB unknown_sccs 34155 2nlrA 234 3.17e+01 2nlrA b.29.1.11 24344 1by2 119 3.26e+01 1by2 d.170.1.1 42452 1m6uA 272 3.29e+01 b.2.5.7 78706 1iqaA 160 3.35e+01 b.22.1.1 71274 1lvk 762 3.43e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 2bpa2 175 3.49e+01 2bpa2 1mbyA 88 3.57e+01 d.223.1.1 78931 1cklA 126 3.62e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1b6sA 355 3.74e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1cfyA 143 3.80e+01 1cof d.109.1.2 40858 1c76A 136 3.92e+01 2sak d.15.5.1 37718