# List of top-scoring protein chains for t04-100-30-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 1us8A 147 3.02e-01 c.37.1.12 -7194 1s1dA 331 3.09e-01 unknown_sccs -4566 1amuA 563 8.24e-01 1amuA e.23.1.1 43351 1lci 550 8.85e-01 1lci e.23.1.1 43349 1f2tA 149 1.32e+00 1f2tA c.37.1.12 32373 1yna 194 1.59e+00 1axkA b.29.1.11 24335 1h4gA 207 1.87e+00 b.29.1.11 70863 1s14A 194 2.44e+00 d.122.1.2 -10973 1mngA 203 2.57e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1vybA 238 2.60e+00 1qh7A 207 3.05e+00 1axkA b.29.1.11 24317 2arcA 164 3.30e+00 2arcA b.82.4.1 28148 1d5tA 433 3.63e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1b8aA 438 5.87e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1iqaA 160 6.01e+00 b.22.1.1 71274 1bk1 184 7.08e+00 1axkA b.29.1.11 24340 1r4wA 226 7.75e+00 unknown_sccs -7447 1rypB 250 8.92e+00 1rypB d.153.1.4 41933 1uch 230 9.55e+00 1uch d.3.1.6 37129 1smlA 269 1.08e+01 1smlA d.157.1.1 42053 1ton 235 1.13e+01 5ptp b.47.1.2 26307 1xypA 190 1.17e+01 1axkA b.29.1.11 24327 1dv1A 449 1.19e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1ud9A 245 1.19e+01 2gar 212 1.24e+01 2gar c.65.1.1 34161 1aszB 490 1.40e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1jx4A 352 1.43e+01 unknown_sccs -10188 unknown_sccs -11898 1jb0D 138 1.61e+01 1jb0D d.187.1.1 62823 1cr5A 189 1.69e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1jj2S 119 1.72e+01 1ffkQ b.34.5.1 63104 1s72T 120 1.73e+01 1f8vA 355 1.75e+01 2bbvA b.121.4.4 23329 1skoA 143 1.92e+01 1ip9A 85 1.96e+01 1ip9A d.15.2.2 62638 1suuA 312 2.05e+01 unknown_sccs -4610 1kzkA 99 2.06e+01 b.50.1.1 73371 1jkxA 212 2.09e+01 c.65.1.1 66813 1rj8A 164 2.11e+01 b.22.1.1 -3263 1kuuA 202 2.19e+01 d.153.2.1 73019 1q15A 503 2.19e+01 c.26.2.1 -6625 d.153.1.1 -11400 1o6aA 96 2.23e+01 unknown_sccs -4101 1vom 762 2.31e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 2nlrA 234 2.38e+01 2nlrA b.29.1.11 24344 1xyn 178 2.42e+01 1axkA b.29.1.11 24322 1vjjA 692 2.44e+01 b.1.18.9 -2758 b.1.5.1 -2786 b.1.5.1 -2787 d.3.1.4 -8893 1garA 212 2.48e+01 2gar c.65.1.1 34162 1cczA 171 2.59e+01 1cczA b.1.1.1 19758 b.1.1.3 21683 1hh2P 344 2.60e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1pvxA 194 2.67e+01 1axkA b.29.1.11 24341 1meoA 209 2.73e+01 c.65.1.1 79035 2bpa2 175 2.74e+01 2bpa2 1ugmA 125 2.77e+01 1f8rA 498 2.82e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1jrrA 382 2.90e+01 e.1.1.1 63256 1k2fA 190 2.91e+01 b.8.1.2 68054 1ig3A 263 2.92e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1td5A 202 2.98e+01 1unnC 115 3.04e+01 unknown_sccs -10216 1oj5A 132 3.19e+01 unknown_sccs -10848 1gsa 316 3.32e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1mmsA 140 3.40e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1difA 99 3.42e+01 1fmb b.50.1.1 26503 1e1aA 314 3.43e+01 1e1aA b.68.6.1 59155 1b6rA 355 3.46e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1iz5A 249 3.51e+01 d.131.1.2 83834 d.131.1.2 83835 1jpc 109 3.52e+01 1b2pA b.78.1.1 27986 1gcoA 261 3.64e+01 1ybvA c.2.1.2 29884 1h4rA 314 3.65e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1geeA 261 3.66e+01 c.2.1.2 -5814 1pjxA 314 3.67e+01 1h1aA 191 3.73e+01 b.29.1.11 83450 1lvk 762 3.76e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1ijtA 128 3.90e+01 1bfg b.42.1.1 62510 1j5yA 187 3.90e+01 a.4.5.1 71592 d.94.2.1 71593 1ghj 79 3.91e+01 1ghj b.84.1.1 28232 1n9eA 787 3.93e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1g26A 31 3.97e+01 1g26A g.3.16.1 44381