# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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 2b43A 526 8.51e-01 1jt8A 102 5.85e+00 b.40.4.5 63279 1f93A 104 8.46e+00 1dcpA d.74.1.1 39688 1dcoA 104 8.88e+00 1dcpA d.74.1.1 39680 1w07A 659 9.35e+00 1dchA 104 9.71e+00 1dcpA d.74.1.1 39692 1ojxA 263 1.20e+01 c.1.10.1 93164 1w8sA 263 1.26e+01 1gr2A 279 1.34e+01 1gr2A c.94.1.1 35825 4ubpA 101 1.35e+01 1ubpA d.8.1.1 37352 1udzA 182 1.41e+01 b.51.1.1 99239 1ftkA 279 1.44e+01 1gr2A c.94.1.1 35819 1ubpA 101 1.50e+01 1ubpA d.8.1.1 37353 1wnyA 186 1.62e+01 1rqjA 299 1.66e+01 a.128.1.1 97744 1dcpA 104 1.76e+01 1dcpA d.74.1.1 39672 1z2cB 383 1.86e+01 1wk8A 194 1.92e+01 1mqiA 263 1.93e+01 c.94.1.1 91398 2fpeA 62 1.99e+01 2ayuA 417 2.09e+01 1wggA 96 2.12e+01 1m5eA 263 2.12e+01 c.94.1.1 78642 1m5dA 263 2.17e+01 c.94.1.1 78641 1iawA 317 2.26e+01 c.52.1.9 62126 1xjuA 163 2.47e+01 1a6o 332 2.48e+01 1a6o 2ai4A 119 2.49e+01 1sh0A 510 2.69e+01 e.8.1.4 98876 1ev7A 317 2.72e+01 1ev7B c.52.1.9 33315 1whi 122 2.74e+01 1whi b.39.1.1 24810 1mqdA 261 2.74e+01 c.94.1.1 85049 1vbkA 307 2.74e+01 1lpuA 332 2.79e+01 d.144.1.7 74177 1ev7B 317 2.92e+01 1ev7B c.52.1.9 33316 1om1A 332 3.02e+01 d.144.1.7 93347 3ullA 132 3.04e+01 3ullA b.40.4.3 25282 1c9fA 90 3.13e+01 1c9fA d.15.2.1 37639 2prk 279 3.19e+01 1gci c.41.1.1 32548 1lp4A 332 3.21e+01 d.144.1.7 74170 7reqA 727 3.25e+01 1reqA c.1.19.1,c.23.6.1 29616,31243 5reqA 727 3.32e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1ic6A 279 3.77e+01 1gci c.41.1.1 62257 1reqA 727 3.84e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1wjnA 97 4.04e+01 1vjvA 415 4.05e+01 d.3.1.9 108632 1m2rA 327 4.07e+01 d.144.1.7 84760 1gtzA 156 4.14e+01 c.23.13.1 70539 1d0iA 156 4.44e+01 2dhqA c.23.13.1 31383 1ut9A 609 4.45e+01 a.102.1.2,b.1.18.2 99912,99913 2bnxA 386 4.50e+01 1ei5A 520 4.52e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1ka6A 128 4.77e+01 d.93.1.1 68370 1wkrA 340 4.90e+01 b.50.1.2 109395 1j5eK 129 4.95e+01 c.55.4.1 71554 3sicI 107 4.97e+01 3ssi d.84.1.1 40028 1zt3A 80 5.22e+01 1o0pA 104 5.23e+01 d.58.7.1 86535 1fjgK 129 5.28e+01 1fjfK c.55.4.1 33733 1yuzA 202 5.32e+01 1lrzA 426 5.53e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1mk4A 157 5.83e+01 d.108.1.1 84979 1qvaA 223 5.93e+01 1qvaA c.37.1.19 32411 1mjc 69 5.93e+01 1mjc b.40.4.5 25319 2g7jA 124 6.09e+01 1hpi 71 6.28e+01 1ckuA g.35.1.1 44995 1ipd 345 6.31e+01 1cnzA c.77.1.1 35038 1xn5A 146 6.39e+01 1bcg 77 6.61e+01 1aho g.3.7.1 44130 1ljrA 244 6.70e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 1lv7A 257 6.72e+01 c.37.1.20 78232 1edg 380 6.90e+01 1edg c.1.8.3 28807 1sv6A 269 7.13e+01 d.177.1.1 106043 2a72A 146 7.17e+01 1zkoA 136 7.20e+01 1tygB 87 7.26e+01 d.15.3.2 107455 1d9tA 289 7.55e+01 1deaA 1i50F 155 7.55e+01 a.143.1.2 61760 1tux 301 7.68e+01 1taxA c.1.8.3 28907 1uqvA 85 7.88e+01 a.60.1.2 99798 1g62A 224 7.97e+01 1g61A d.126.1.1 41128 1idm 343 8.07e+01 1cnzA c.77.1.1 35035 1d4tA 104 8.16e+01 1d4tA d.93.1.1 40537 1kgqA 274 8.35e+01 b.81.1.2 72447 2kauA 100 8.51e+01 1ubpA d.8.1.1 37335 1ne7A 289 8.53e+01 c.124.1.1 91833 1twfF 155 8.54e+01 1uqrA 154 8.67e+01 c.23.13.1 99779 2d1yA 256 8.73e+01 1ycsB 239 8.93e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553