# 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 1jrmA 104 5.75e-15 d.206.1.1 67136 1tn3 137 2.09e+00 1htn d.169.1.1 42423 1a2oA 349 2.49e+00 1chd c.23.1.1 31120 c.40.1.1 32479 1htn 182 2.76e+00 1htn d.169.1.1 42424 h.1.1.1 45426 1vig 71 4.43e+00 1vih d.51.1.1 38806 1vih 71 4.43e+00 1vih d.51.1.1 38807 1frpA 335 4.50e+00 1frpA e.7.1.1 42875 5fbpA 335 4.54e+00 1frpA e.7.1.1 42873 1fpkA 335 4.54e+00 1frpA e.7.1.1 42930 1rdzA 337 4.56e+00 1frpA e.7.1.1 42882 1fsaA 337 4.63e+00 1frpA e.7.1.1 42903 1g1sA 162 5.23e+00 d.169.1.1 65100 g.3.11.1 65101 1jqhA 308 6.43e+00 1nfa 178 6.46e+00 1a02N b.2.5.1 22442 1fj6A 337 6.54e+00 1frpA e.7.1.1 42915 1cnqA 337 6.57e+00 1frpA e.7.1.1 42879 1d2vA 104 6.59e+00 1d2vA a.93.1.2 18697 1cxpA 104 6.59e+00 1d2vA a.93.1.2 18695 1mhlA 108 6.63e+00 1d2vA a.93.1.2 18699 1mypA 108 6.63e+00 1d2vA a.93.1.2 18701 1mypB 108 6.63e+00 1mypB a.93.1.2 18702 5cscA 429 6.66e+00 1csh a.103.1.1 18894 1a66A 178 6.77e+00 1a02N b.2.5.1 22441 1jscA 630 6.93e+00 c.31.1.3 67224 c.36.1.1 67225 c.36.1.1 67226 1bk4A 337 7.29e+00 1frpA e.7.1.1 42938 1k3aA 299 8.78e+00 d.144.1.2 68098 1a02N 301 9.16e+00 1a02N b.1.1.5 21923 b.2.5.1 22440 1hg5A 289 9.29e+00 1hg5A a.118.10.1 19221 1hf8A 289 9.29e+00 1hg5A a.118.10.1 19219 1ad5A 438 1.02e+01 1fmk b.34.2.1 24505 d.93.1.1 40491 d.144.1.2 41681 1apxA 249 1.04e+01 1ryc a.93.1.1 18669 1i3sC 298 1.06e+01 b.28.1.1 66023 1qcfA 454 1.07e+01 1fmk b.34.2.1 24498 d.93.1.1 40490 d.144.1.2 41680 1i4eA 300 1.07e+01 1p35A b.28.1.1 61685 1p35A 299 1.07e+01 1p35A b.28.1.1 23925 1i3pA 298 1.08e+01 b.28.1.1 66020 6cts 433 1.09e+01 1csh a.103.1.1 18891 1irk 306 1.12e+01 1fmk d.144.1.2 41703 1i44A 306 1.13e+01 1fmk d.144.1.2 61664 3btdI 58 1.22e+01 1bpi g.8.1.1 44485 1biiB 119 1.23e+01 1agdB b.1.1.2 20844 1anu 138 1.25e+01 1aohA b.2.2.2 22403 1ftaA 337 1.29e+01 1frpA e.7.1.1 42934 3rlaA 323 1.44e+01 1d3vA c.42.1.1 32564 1a0p 290 1.47e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1ir3A 306 1.50e+01 1fmk d.144.1.2 41702 1tdf 316 1.52e+01 1trb c.3.1.5 30533 c.3.1.5 30534 1tde 316 1.53e+01 1trb c.3.1.5 30531 c.3.1.5 30532 1kjwA 295 1.53e+01 b.34.2.1 68643 c.37.1.1 68644 1trb 320 1.54e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1f6mA 320 1.54e+01 1trb c.3.1.5 30537 c.3.1.5 30538 1cl0A 320 1.55e+01 1trb c.3.1.5 30535 c.3.1.5 30536 1hqxA 323 1.55e+01 1d3vA c.42.1.1 61161 2rlaA 323 1.55e+01 1d3vA c.42.1.1 32573 1rlaA 323 1.55e+01 1d3vA c.42.1.1 32561 1d3vA 323 1.55e+01 1d3vA c.42.1.1 32559 1jxmA 301 1.55e+01 b.34.2.1 67420 c.37.1.1 67421 1hqgA 323 1.56e+01 1d3vA c.42.1.1 61136 2tsyA 262 1.81e+01 2tysA c.1.2.4 28583 1ayx 492 1.97e+01 1ayx a.102.1.1 18825 1buqA 125 2.02e+01 1opy d.17.4.3 38111 1eyqA 222 2.17e+01 1eypA d.36.1.1 38534 1jepA 222 2.17e+01 d.36.1.1 66612 1eypA 222 2.17e+01 1eypA d.36.1.1 38536 1qo3B 100 2.22e+01 1agdB b.1.1.2 20842 1bz9B 100 2.25e+01 1agdB b.1.1.2 20830 1ddhB 99 2.29e+01 1agdB b.1.1.2 20846 1aohB 147 2.32e+01 1aohA b.2.2.2 22402 1aohA 147 2.32e+01 1aohA b.2.2.2 22401 1fzkB 99 2.33e+01 1agdB b.1.1.2 60151 1fzoB 99 2.33e+01 1agdB b.1.1.2 60157 1mhcB 99 2.33e+01 1agdB b.1.1.2 20832 3btgI 58 2.50e+01 1bpi g.8.1.1 44492 1qh5A 260 2.70e+01 1qh5A d.157.1.2 42057 1qh3A 260 2.70e+01 1qh5A d.157.1.2 42059 4pfk 319 2.80e+01 3pfk c.89.1.1 35582 3pfk 319 2.80e+01 3pfk c.89.1.1 35581 1bpt 58 2.83e+01 1bpi g.8.1.1 44495 3bthI 58 2.88e+01 1bpi g.8.1.1 44479 7at1B 146 2.93e+01 8atcB d.58.2.1 39053 g.41.7.1 45305 9atcB 146 2.94e+01 8atcB d.58.2.1 39057 g.41.7.1 45309 6pfkA 319 2.95e+01 3pfk c.89.1.1 35583 1nbeB 153 2.99e+01 8atcB d.58.2.1 39041 g.41.7.1 45293 8atcB 153 3.00e+01 8atcB d.58.2.1 39027 g.41.7.1 45279 1d09B 153 3.03e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 1raiD 147 3.05e+01 8atcB d.58.2.1 39030 g.41.7.1 45282 1dkiA 371 3.08e+01 1dkiA d.3.1.1 37090 1raaB 154 3.14e+01 8atcB d.58.2.1 39033 g.41.7.1 45285 1kncA 177 3.42e+01 a.152.1.1 68703 1gsjA 258 3.43e+01 1gu9A 177 3.58e+01 a.152.1.1 65540 2atcB 152 3.58e+01 8atcB d.58.2.1 39062 g.41.7.1 45314 1hx8B 299 3.67e+01 1hg5A a.118.10.1 19223 1lopA 164 3.76e+01 2cpl b.62.1.1 27510 2nul 164 3.77e+01 2cpl b.62.1.1 27511 1gs5A 258 3.84e+01 1wba 175 3.90e+01 1wba b.42.4.1 25591 1g6xA 58 3.93e+01 1bpi g.8.1.1 60320