# 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 3.38e-01 unknown_sccs -4566 2aacA 177 5.19e-01 2arcA b.82.4.1 28150 2arcB 164 6.74e-01 2arcA b.82.4.1 28149 2arcA 164 6.75e-01 2arcA b.82.4.1 28148 1kzkA 99 8.42e-01 b.50.1.1 73371 1mngA 203 1.10e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1hvc 203 1.47e+00 1hvc b.50.1.1 26614 1difA 99 1.49e+00 1fmb b.50.1.1 26503 1k1tA 99 1.76e+00 b.50.1.1 71995 1kuuA 202 2.07e+00 d.153.2.1 73019 1dazC 99 2.11e+00 1hvc b.50.1.1 26501 1yna 194 2.62e+00 1axkA b.29.1.11 24335 1rypB 250 2.78e+00 1rypB d.153.1.4 41933 1lci 550 3.25e+00 1lci e.23.1.1 43349 1bncB 449 3.50e+00 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1d5tA 433 3.63e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1vjjA 692 3.76e+00 b.1.18.9 -2758 b.1.5.1 -2786 b.1.5.1 -2787 d.3.1.4 -8893 1rllA 692 3.78e+00 1nh0A 99 3.94e+00 b.50.1.1 -4299 1vybA 238 4.38e+00 1bncA 449 4.93e+00 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1uch 230 4.99e+00 1uch d.3.1.6 37129 1cklB 126 5.14e+00 1cklB g.18.1.1 44853 g.18.1.1 44854 1xvaA 292 5.16e+00 1xvaA c.66.1.5 34183 5hvpA 99 5.35e+00 1fmb b.50.1.1 26605 1dv2A 452 5.92e+00 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1d2gA 292 6.12e+00 1xvaA c.66.1.5 34187 1l9mA 692 6.18e+00 b.1.18.9 73732 b.1.5.1 73733 b.1.5.1 73734 d.3.1.4 73735 1mejA 223 6.31e+00 c.65.1.1 79029 1t0yA 122 7.12e+00 d.15.1.1 -9151 1h4gA 207 7.19e+00 b.29.1.11 70863 1amuA 563 7.28e+00 1amuA e.23.1.1 43351 1dv1A 449 7.58e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1bbzE 58 7.72e+00 1bbzA b.34.2.1 24479 1ugmA 125 8.35e+00 1ip9A 85 8.53e+00 1ip9A d.15.2.2 62638 1ud9A 245 8.54e+00 2gar 212 8.70e+00 2gar c.65.1.1 34161 1ig3A 263 9.05e+00 1ig3A b.82.6.1 62358 c.100.1.1 62359 1qh7A 207 9.08e+00 1axkA b.29.1.11 24317 1suuA 312 9.30e+00 unknown_sccs -4610 1q15A 503 9.47e+00 c.26.2.1 -6625 d.153.1.1 -11400 1hh2P 344 9.55e+00 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1m3jA 471 1.02e+01 f.9.1.1 -12372 1oejA 193 1.07e+01 unknown_sccs -4461 1jb0D 138 1.07e+01 1jb0D d.187.1.1 62823 1giqA 413 1.18e+01 d.166.1.1 76224 d.166.1.1 76225 1b8aA 438 1.19e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1n9eA 787 1.23e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1luzA 88 1.25e+01 b.40.4.5 74271 1bmlC 362 1.32e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1bbzA 58 1.32e+01 1bbzA b.34.2.1 24477 1aboA 62 1.39e+01 1bbzA b.34.2.1 24474 1glv 303 1.41e+01 1gsa c.30.1.3 31721 d.142.1.1 41480 1jkxA 212 1.50e+01 c.65.1.1 66813 1r62A 160 1.50e+01 1h4rA 314 1.51e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1oeyA 83 1.54e+01 d.15.2.2 -9162 1us8A 147 1.54e+01 c.37.1.12 -7194 1idaA 99 1.61e+01 1fmb b.50.1.1 26715 1fkf 107 1.64e+01 1fkj d.26.1.1 38386 1fkj 107 1.64e+01 1fkj d.26.1.1 38384 1o12A 376 1.65e+01 b.92.1.5 80758 c.1.9.10 80759 1dy9A 187 1.65e+01 1jxpA b.47.1.3 26400 1r9fA 136 1.67e+01 unknown_sccs -10736 1aszB 490 1.69e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1xypA 190 1.72e+01 1axkA b.29.1.11 24327 1ykfA 352 1.73e+01 1pedA b.35.1.2 24757 c.2.1.1 29773 1enxA 190 1.76e+01 1axkA b.29.1.11 24325 1by2 119 1.76e+01 1by2 d.170.1.1 42452 1rypD 241 1.77e+01 1rypD d.153.1.4 41935 1r0vA 305 1.81e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1meoA 209 1.83e+01 c.65.1.1 79035 1h1aA 191 1.92e+01 b.29.1.11 83450 1m3iA 471 2.04e+01 f.9.1.1 -12374 1garA 212 2.06e+01 2gar c.65.1.1 34162 1plr 258 2.08e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1nmtA 392 2.12e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1ijtA 128 2.16e+01 1bfg b.42.1.1 62510 1m2oA 768 2.18e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1sefA 274 2.24e+01 1bhjA 292 2.26e+01 1xvaA c.66.1.5 34189 1b6rA 355 2.38e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1bkf 107 2.42e+01 1fkj d.26.1.1 38382 1r4wA 226 2.47e+01 unknown_sccs -7447 1ktjA 129 2.53e+01 b.1.18.7 72974 1cnuA 137 2.58e+01 1cof d.109.1.2 40862 1axkA 394 2.61e+01 1axkA b.29.1.2 24181 b.29.1.11 24315 1rypH 205 2.61e+01 d.153.1.4 41876 1al0G 175 2.63e+01 2bpa2 b.121.5.1 23275 1skoA 143 2.78e+01 1c8oA 300 2.80e+01 1c8oA e.1.1.1 42677 1pjxA 314 2.86e+01 1gttA 429 2.86e+01 d.177.1.1 70529 d.177.1.1 70530 1pfo 500 2.87e+01 1pfo f.9.1.1 43826 1i7oA 429 2.90e+01 1i7oA d.177.1.1 61893 d.177.1.1 61894 1ffkP 84 2.91e+01 1ffkP d.12.1.1 37493 1dcuA 357 2.93e+01 1frpA e.7.1.1 42943 1e1aA 314 3.02e+01 1e1aA b.68.6.1 59155 1s2kA 206 3.04e+01 unknown_sccs -3494 1m6uA 272 3.05e+01 b.2.5.7 78706 1cklA 126 3.05e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1d3bA 75 3.08e+01 1d3bA b.38.1.1 24798 1f8vA 355 3.14e+01 2bbvA b.121.4.4 23329 1gcqA 61 3.47e+01 1ckaA b.34.2.1 60434 1bk1 184 3.49e+01 1axkA b.29.1.11 24340 1s14A 194 3.49e+01 d.122.1.2 -10973 1mbyA 88 3.52e+01 d.223.1.1 78931 1cr5A 189 3.58e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1rwzA 245 3.61e+01 d.131.1.2 -11106 d.131.1.2 -11107 2wrpR 107 3.65e+01 1jhgA a.4.12.1 19010 1jhgA 101 3.67e+01 1jhgA a.4.12.1 19009 1b4aA 149 3.68e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1tie 172 3.69e+01 1wba b.42.4.1 25592 1ae9A 179 3.74e+01 1ae9A d.163.1.1 42153 8prkA 287 3.87e+01 1wgjA b.40.5.1 25395 1jb7B 260 3.90e+01 1otcB b.40.4.3 62839 1m5q1 130 3.91e+01 1j3wA 163 3.94e+01 unknown_sccs -10870