# List of top-scoring protein chains for T0204.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 1hxqB 348 4.64e-40 1guqA d.13.1.2 37544 d.13.1.2 37545 1hxqA 348 5.12e-40 1guqA d.13.1.2 37542 d.13.1.2 37543 1hxpA 348 5.71e-40 1guqA d.13.1.2 37530 d.13.1.2 37531 1guqA 348 2.71e-39 1guqA d.13.1.2 37522 d.13.1.2 37523 1emsA 440 1.30e-10 1emsA d.13.1.1 37520 d.160.1.1 42086 1rzyA 126 5.54e-10 4rhn 115 6.91e-10 1kpf d.13.1.1 37495 1kpf 126 6.99e-10 1kpf d.13.1.1 37507 1fit 147 1.98e-08 1fit d.13.1.1 37499 2fhi 147 4.85e-08 1fit d.13.1.1 37505 1h4pA 408 3.14e-01 1vecA 206 7.20e-01 1bpyA 335 1.80e+00 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1gbnA 402 1.94e+00 2dkb c.67.1.4 34455 2oatA 439 1.95e+00 2dkb c.67.1.4 34452 1jn3A 251 3.24e+00 1bpyA a.60.12.1 75864 d.218.1.2 75865 1rpl 251 3.37e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1bpb 248 3.39e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1jmjA 480 3.39e+00 e.1.1.1 77135 1qy1A 174 3.74e+00 1huzA 335 4.02e+00 1bpyA a.60.6.1 61281 a.60.12.1 75850 d.218.1.2 75851 1bpe 335 4.14e+00 1bpyA a.60.6.1 18076 a.60.12.1 75815 d.218.1.2 75816 1jv4A 162 4.95e+00 b.60.1.1 67343 1epxA 370 5.27e+00 1fbaA c.1.10.1 29150 1dfeA 37 6.84e+00 1dfeA g.42.1.1 45318 1fg7A 356 9.58e+00 1gewA c.67.1.1 59819 1i06A 180 1.06e+01 1mup b.60.1.1 27131 1cqwA 295 1.19e+01 1b6g c.69.1.8 34679 1mup 166 1.31e+01 1mup b.60.1.1 27133 1dviA 184 1.32e+01 1alvA a.39.1.8 17365 1aj5A 173 1.33e+01 1alvA a.39.1.8 17367 1df0B 184 1.35e+01 1alvA a.39.1.8 17369 1bn7A 294 1.35e+01 1bn6A c.69.1.8 34677 1eamA 307 1.35e+01 3mag c.66.1.25 34212 1np8A 159 1.36e+01 1oqhA 337 1.45e+01 c.94.1.2 87305 1k30A 368 1.47e+01 c.112.1.1 68067 1iuqA 367 1.47e+01 1ixrA 191 1.50e+01 a.60.2.1 76925 b.40.4.2 76926 1bak 119 1.71e+01 1bak b.55.1.1 26973 1eikA 77 1.76e+01 1eikA d.78.1.1 39751 1fqfA 331 1.77e+01 1nnt c.94.1.2 59989 1dtgA 334 1.79e+01 1nnt c.94.1.2 35896 1n7xA 331 1.96e+01 c.94.1.2 85379 1b3eA 330 1.99e+01 1nnt c.94.1.2 35897 1eqa 297 1.99e+01 3mag c.66.1.25 34216 1vqe 87 2.08e+01 1gvp b.40.4.7 25380 1bp5A 337 2.11e+01 1cb6A c.94.1.2 35892 1oqgA 337 2.17e+01 c.94.1.2 87304 1j3qA 190 2.17e+01 1yuiA 54 2.21e+01 1yuiA g.37.1.1 45073 1li4A 432 2.27e+01 c.2.1.4 84616 c.23.12.3 84617 1d3kA 329 2.31e+01 1nnt c.94.1.2 35889 1a7aA 432 2.31e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1n7wA 331 2.32e+01 c.94.1.2 85378 1a8e 329 2.34e+01 1cb6A c.94.1.2 35888 1n84A 331 2.35e+01 c.94.1.2 85389 1d2gA 292 2.36e+01 1xvaA c.66.1.5 34187 1vqh 87 2.38e+01 1gvp b.40.4.7 25379 1vqf 87 2.39e+01 1gvp b.40.4.7 25372 1xvaA 292 2.45e+01 1xvaA c.66.1.5 34183 1vqc 87 2.48e+01 1gvp b.40.4.7 25378 1jqfA 334 2.54e+01 c.94.1.2 67086 1vbe1 300 2.57e+01 1pov1 1ryoA 327 2.70e+01 1vqi 87 2.74e+01 1gvp b.40.4.7 25373 1vbb1 300 2.80e+01 1pov1 1uunA 184 2.81e+01 1pvc1 301 2.81e+01 1pov1 1d4nA 329 2.81e+01 1nnt c.94.1.2 35891 1vpt 348 2.87e+01 3mag c.66.1.25 34207 1ct5A 256 2.87e+01 1ct5A c.1.6.2 28663 1b54 257 2.87e+01 1ct5A c.1.6.2 28664 1is8A 230 2.92e+01 d.96.1.1 66321 1av6A 295 2.93e+01 3mag c.66.1.25 34218 3mct 297 2.93e+01 3mag c.66.1.25 34215 1rc6A 261 2.94e+01 3mag 307 2.94e+01 3mag c.66.1.25 34205 1v39 322 2.99e+01 3mag c.66.1.25 34206 1vp3 348 2.99e+01 3mag c.66.1.25 34209 1fqeA 331 3.05e+01 1nnt c.94.1.2 59988 1kdoA 227 3.12e+01 c.37.1.1 68478 1vqd 87 3.31e+01 1gvp b.40.4.7 25375 1vhmA 195 3.31e+01 1gkh 87 3.43e+01 1gvp b.40.4.7 25371 1ndeA 255 3.43e+01 a.123.1.1 80415 1gtuA 217 3.45e+01 1b8xA a.45.1.1 17607 c.47.1.5 32901 1ckeA 227 3.46e+01 1ckeA c.37.1.1 31846 1hzhH 457 3.51e+01 1igtB b.1.1.1 61437 b.1.1.2 61438 b.1.1.2 61439 b.1.1.2 61440 1vqj 87 3.61e+01 1gvp b.40.4.7 25374 1dtzA 689 3.63e+01 1cb6A c.94.1.2 59134 c.94.1.2 59135 1ln0A 97 3.84e+01 d.226.1.1 78099 1vqg 87 3.90e+01 1gvp b.40.4.7 25376 1jb0C 80 3.94e+01 1jb0C d.58.1.4 62822