# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1gtzA 156 2.83e+00 c.23.13.1 70539 1d0iA 156 3.23e+00 2dhqA c.23.13.1 31383 1n67A 359 3.96e+00 b.2.3.4,b.2.3.4 85354,85355 1w07A 659 4.26e+00 1lpuA 332 6.21e+00 d.144.1.7 74177 1lp4A 332 6.33e+00 d.144.1.7 74170 1m2rA 327 6.87e+00 d.144.1.7 84760 1om1A 332 6.93e+00 d.144.1.7 93347 1rqjA 299 7.90e+00 a.128.1.1 97744 1a6o 332 8.14e+00 1a6o 1o0pA 104 1.01e+01 d.58.7.1 86535 1jt8A 102 1.08e+01 b.40.4.5 63279 1m6eX 359 1.09e+01 c.66.1.35 91188 1edg 380 1.33e+01 1edg c.1.8.3 28807 1mjc 69 1.36e+01 1mjc b.40.4.5 25319 2c4wA 176 1.37e+01 1mo9A 523 1.49e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1k3lA 221 1.51e+01 a.45.1.1,c.47.1.5 77229,77230 1q3eA 207 1.60e+01 b.82.3.2 95669 2ftzA 284 2.02e+01 1jwhA 337 2.06e+01 d.144.1.7 71913 3mefA 69 2.07e+01 1mjc b.40.4.5 25320 1e9rA 437 2.09e+01 c.37.1.11 64827 1k3yA 221 2.15e+01 a.45.1.1,c.47.1.5 77245,77246 1gseA 221 2.16e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 2fpeA 62 2.37e+01 1wwzA 159 2.41e+01 1zxoA 291 2.53e+01 2bnxA 386 2.55e+01 1muyA 225 2.58e+01 1mun a.96.1.2 18745 1d4tA 104 2.63e+01 1d4tA d.93.1.1 40537 1f93A 104 2.63e+01 1dcpA d.74.1.1 39688 1mun 225 2.76e+01 1mun a.96.1.2 18744 1ymiA 334 2.93e+01 1xn5A 146 2.99e+01 1iawA 317 3.11e+01 c.52.1.9 62126 1dchA 104 3.21e+01 1dcpA d.74.1.1 39692 2g09A 297 3.25e+01 1dcpA 104 3.31e+01 1dcpA d.74.1.1 39672 1mwmA 320 3.41e+01 c.55.1.1,c.55.1.1 79580,79581 1dcoA 104 3.49e+01 1dcpA d.74.1.1 39680 1zt3A 80 3.56e+01 1ka6A 128 3.56e+01 d.93.1.1 68370 2ech 50 3.57e+01 1fvl g.20.1.1 44879 1mkiA 330 3.59e+01 e.3.1.2 84994 1zz1A 369 3.67e+01 1whi 122 3.73e+01 1whi b.39.1.1 24810 1hpi 71 3.80e+01 1ckuA g.35.1.1 44995 2bduA 297 3.80e+01 1tux 301 3.87e+01 1taxA c.1.8.3 28907 1iioA 84 3.97e+01 a.39.4.1 66150 1fcbA 511 4.01e+01 1gox c.1.4.1,d.120.1.1 28620,41087 1ppjB 439 4.03e+01 d.185.1.1,d.185.1.1 104254,104255 1mk4A 157 4.25e+01 d.108.1.1 84979 1vehA 92 4.33e+01 1zbsA 291 4.37e+01 1m6iA 493 4.37e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1es6A 296 4.45e+01 1es6A b.31.1.1,b.31.1.1 83048,83049 1c9oA 66 4.52e+01 1mjc b.40.4.5 25325 1eu8A 409 4.65e+01 1eu8A c.94.1.1 59502 1udzA 182 4.71e+01 b.51.1.1 99239 1ev7B 317 4.76e+01 1ev7B c.52.1.9 33316 2ch4A 320 4.94e+01 1ev7A 317 5.08e+01 1ev7B c.52.1.9 33315 1l0lB 439 5.11e+01 d.185.1.1,d.185.1.1 84484,84485 1cz3A 168 5.15e+01 1d1gA c.71.1.1 34891 1dpb 243 5.25e+01 1eaf c.43.1.1 32618 1wnyA 186 5.31e+01 1wk8A 194 5.34e+01 1wjnA 97 5.78e+01 1qh4A 380 5.81e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1e96B 203 5.93e+01 1e96B a.118.8.1 19211 1iqyA 638 5.93e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1epuA 591 5.95e+01 1dn1A e.25.1.1 43358 1f0lA 535 5.99e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 3ullA 132 6.00e+01 3ullA b.40.4.3 25282 1eaf 243 6.24e+01 1eaf c.43.1.1 32617 1taxA 302 6.25e+01 1taxA 1afvH 220 6.50e+01 1mfa b.1.1.1,b.1.1.2 20131,21161 1mpp 361 6.53e+01 2rmpA b.50.1.2 26856 1z2cB 383 6.57e+01 1d1gA 168 6.59e+01 1d1gA c.71.1.1 34889 1b6u 257 6.65e+01 1nkr b.1.1.4,b.1.1.4 21797,21798 1be3B 439 6.67e+01 1be3B d.185.1.1,d.185.1.1 58952,58953 1avk 638 6.68e+01 1a2vA b.30.2.1,d.17.2.1,d.17.2.1 24410,38047,38048 1ukcA 522 6.83e+01 c.69.1.17 107911 2bcoA 350 6.87e+01 1aw9 216 6.94e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1ei5A 520 7.11e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1k3sA 113 7.15e+01 d.198.1.1 68120 1txqA 93 7.26e+01 1i7qA 519 7.36e+01 1qdlA d.161.1.1 61901 1uqvA 85 7.50e+01 a.60.1.2 99798 1im3D 95 7.55e+01 1im3D b.1.18.5 62568 1u69A 163 7.67e+01 d.32.1.7 107699 1pg4A 652 7.69e+01 e.23.1.1 88067 1wggA 96 7.74e+01 1ui7A 638 7.87e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1rjoA 646 7.87e+01 1a8q 274 7.89e+01 1brt c.69.1.12 34702 1d1dA 262 7.89e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1bxyA 60 7.89e+01 1bxyA d.59.1.1 39525 1rh9A 373 7.89e+01 1nbwA 607 7.93e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1vhsA 175 7.93e+01 d.108.1.1 100698 8tlnE 316 7.97e+01 1hyt d.92.1.2 59075 1y7pA 223 8.26e+01 1mwyA 73 8.29e+01 d.58.17.1 79616 6tmnE 316 8.32e+01 1hyt d.92.1.2 59071 1w6gA 646 8.41e+01 1wm5A 208 8.62e+01 2g5cA 281 8.65e+01 830cA 168 8.72e+01 1ck7A d.92.1.11 40400 1csp 67 8.79e+01 1mjc b.40.4.5 25321 1c9fA 90 8.82e+01 1c9fA d.15.2.1 37639 2u1a 88 8.99e+01 2u1a d.58.7.1 39164