# List of top-scoring protein chains for T0238.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 1odfA 290 1.33e-01 c.37.1.6 -7045 1vk3A 615 6.41e-01 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1t7pA 698 1.67e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1s6cA 183 1.83e+00 a.39.1.5 -858 1o1yA 239 2.91e+00 c.23.16.1 86554 1eluA 390 4.45e+00 1elqA c.67.1.3 34434 1n2tA 386 5.86e+00 c.67.1.3 79858 1rvkA 382 6.88e+00 c.1.11.2 -5568 d.54.1.1 -9826 1aihA 170 7.20e+00 1aihA d.163.1.1 42149 1ju9A 374 9.39e+00 b.35.1.2 63293 c.2.1.1 63294 1qezA 173 9.54e+00 2prd b.40.5.1 25410 1n8kA 374 1.15e+01 b.35.1.2 80298 c.2.1.1 80299 1s7zA 117 1.20e+01 unknown_sccs -344 1oc2A 348 1.20e+01 c.2.1.2 -5753 1mgoA 374 1.21e+01 b.35.1.2 79094 c.2.1.1 79095 1axeA 374 1.26e+01 2ohxA b.35.1.2 24681 c.2.1.1 29697 1a71A 374 1.27e+01 2ohxA b.35.1.2 24673 c.2.1.1 29689 1d1tA 373 1.30e+01 2ohxA b.35.1.2 24719 c.2.1.1 29735 1heuA 374 1.30e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1axgA 374 1.31e+01 2ohxA b.35.1.2 24691 c.2.1.1 29707 1d1sA 373 1.31e+01 2ohxA b.35.1.2 24727 c.2.1.1 29743 1qlhA 374 1.33e+01 2ohxA b.35.1.2 24685 c.2.1.1 29701 1qs8A 329 1.39e+01 1smrA b.50.1.2 26887 1ii6A 368 1.39e+01 1bg2 c.37.1.9 62413 1q0bA 367 1.39e+01 c.37.1.9 -7105 1a52A 258 1.43e+01 3erdA a.123.1.1 19296 1kt1A 457 1.45e+01 a.118.8.1 77528 d.26.1.1 77529 d.26.1.1 77530 2bat 388 1.50e+01 2qwc b.68.1.1 27564 1qv6A 374 1.56e+01 b.35.1.2 -3665 c.2.1.1 -5689 1vjs 483 1.62e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1lrzA 426 1.66e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1v39 322 1.74e+01 3mag c.66.1.25 34206 1f4xH 216 1.76e+01 1igtB b.1.1.1 20451 b.1.1.2 21415 1vp3 348 1.78e+01 3mag c.66.1.25 34209 1ivgA 388 1.93e+01 1s72W 154 2.01e+01 1vpt 348 2.02e+01 3mag c.66.1.25 34207 1foeA 377 2.08e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1fizA 263 2.13e+01 5ptp 3pmgA 561 2.23e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1f2tB 148 2.27e+01 1f2tB 1kqfB 294 2.32e+01 d.58.1.5 75900 f.23.22.1 75901 1b0aA 288 2.38e+01 1a4iA c.2.1.7 30286 c.58.1.2 33934 1a32 88 2.40e+01 1a32 a.16.1.2 16384 1zakA 222 2.41e+01 1zin c.37.1.1 31913 g.41.2.1 45202 1nf2A 268 2.54e+01 c.108.1.10 -6842 1dsyA 139 2.57e+01 1rsy b.7.1.2 23196 1qd7H 85 2.63e+01 1a32 i.1.1.3 45871 1dfkA 830 2.64e+01 1lvk b.34.3.1 24573 c.37.1.9 32170 1dflA 831 2.64e+01 1lvk b.34.3.1 24574 c.37.1.9 32171 1ee2A 373 2.64e+01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1b7tA 835 2.68e+01 1lvk b.34.3.1 24572 c.37.1.9 32169 1kk8A 837 2.69e+01 b.34.3.1 77428 c.37.1.9 77429 1bplB 294 2.70e+01 1bli b.71.1.1 27716 1qviA 840 2.70e+01 b.34.3.1 -3582 c.37.1.9 -7104 1h72C 296 2.70e+01 d.14.1.5 60712 d.58.26.1 60713 1v92A 46 2.74e+01 a.5.2.3 -357 1jdpA 441 3.20e+01 c.93.1.1 62906 1jteA 307 3.25e+01 c.66.1.25 71860 1us8B 144 3.36e+01 1ks8A 433 3.37e+01 a.102.1.2 77519 1ry6A 360 3.39e+01 c.37.1.9 -7111 1i0aA 466 3.49e+01 1auwA a.127.1.1 61479 4dcg 307 3.57e+01 3mag c.66.1.25 34208 1eqa 297 3.62e+01 3mag c.66.1.25 34216 1eamA 307 3.64e+01 3mag c.66.1.25 34212 3mct 297 3.64e+01 3mag c.66.1.25 34215 3mag 307 3.67e+01 3mag c.66.1.25 34205 1pl2A 222 3.75e+01 1qo5A 363 3.77e+01 1fbaA c.1.10.1 29102 1ru3A 732 3.84e+01 e.26.1.3 -12021 1d3uA 181 3.88e+01 1ytbA d.129.1.1 41290 d.129.1.1 41291 1aisA 182 3.93e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289