# 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 1csbB 205 6.21e-01 1theB 1g47A 77 1.49e+00 1g47A g.39.1.3,g.39.1.3 45147,45148 1g5cA 170 2.32e+00 1g5cA c.53.2.1 60264 1eal 127 2.60e+00 1hmt b.60.1.2 27227 1p5hA 428 2.73e+00 c.123.1.1 87802 1iq4A 179 3.34e+00 1iq4A d.77.1.1 62641 1theA 260 3.65e+00 1theB d.3.1.1 37056 1theB 260 3.73e+00 1theB d.3.1.1 37057 1fkd 107 3.94e+00 1fkj d.26.1.1 38383 1fkj 107 4.32e+00 1fkj d.26.1.1 38384 1dq3A 454 4.42e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1po5A 476 4.51e+00 a.104.1.1 94963 1fkf 107 4.87e+00 1fkj d.26.1.1 38386 1bkf 107 5.44e+00 1fkj d.26.1.1 38382 1v52A 133 5.70e+00 1hoe 74 5.98e+00 1hoe b.5.1.1 22833 2ait 74 6.75e+00 1hoe b.5.1.1 22837 3ait 74 7.38e+00 1hoe b.5.1.1 22835 1mkeA 152 7.47e+00 b.55.1.4 79231 1ok0A 74 8.94e+00 b.5.1.1 93191 1goh 639 1.08e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 1gmyA 261 1.10e+01 d.3.1.1 76236 2sas 185 1.15e+01 2sas a.39.1.5 17258 1k3iA 656 1.24e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1gof 639 1.31e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1i8nA 126 1.36e+01 1i8nA g.10.1.2 61976 1tif 78 1.44e+01 1tif d.15.8.1 37836 1cjsA 219 1.48e+01 1cjsA e.24.1.1 43354 1mvwB 145 1.59e+01 i.15.1.1 79524 1pmzA 86 1.67e+01 a.39.1.10 104195 1a8h 500 1.67e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 2a7yA 83 1.81e+01 1d06A 130 1.94e+01 1drmA d.110.3.2 40906 2djkA 133 2.19e+01 1wi6A 88 2.21e+01 1i2aA 219 2.27e+01 e.24.1.1 90660 1fdr 248 2.39e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1b8tA 192 2.49e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1kskA 234 2.53e+01 d.66.1.5,d.265.1.3 72920,90389 1rsy 152 2.65e+01 1rsy b.7.1.2 23192 1kbaA 66 2.69e+01 3ebx g.7.1.1 44431 1mioA 534 2.71e+01 1qguA c.92.2.3 35601 1woyA 500 2.71e+01 1ew0A 130 2.81e+01 1drmA d.110.3.2 40905 1mszA 86 2.84e+01 d.68.7.1 79428 1ly7A 121 2.99e+01 d.82.2.1 74339 1rcd 173 3.00e+01 2fha a.25.1.1 16687 1usuA 260 3.04e+01 d.14.1.8 99885 1kjs 74 3.05e+01 1kjs a.50.1.1 17792 2cxaA 256 3.07e+01 1qsgA 265 3.12e+01 1eny c.2.1.2 29935 1vddA 228 3.21e+01 e.49.1.1 108519 2dlbA 80 3.35e+01 2cokA 113 3.54e+01 1vhqA 232 3.67e+01 c.23.16.2 100696 1a2aA 122 3.68e+01 1poa a.133.1.2 19540 1j83A 180 3.72e+01 b.18.1.12 66430 1rwjA 82 3.76e+01 a.138.1.1 105114 1kppA 145 3.78e+01 d.20.1.2 72846 1rybA 212 3.78e+01 c.56.3.1 98098 1drmA 131 3.80e+01 1drmA d.110.3.2 40908 1ekgA 127 3.81e+01 1dlxA d.82.2.1 40021 1oy1A 228 3.86e+01 c.23.16.2 87548 1lswA 131 3.89e+01 d.110.3.2 78181 2gxfA 142 3.95e+01 1vckA 115 3.98e+01 1tafB 70 3.98e+01 1tafB a.22.1.3 16482 1eylA 186 4.10e+01 1wba b.42.4.1 25593 1wdcB 156 4.13e+01 1wdcB a.39.1.5 17302 1kk8B 139 4.15e+01 a.39.1.5 77430 1ihfB 94 4.24e+01 1huuA a.55.1.1 17894 1snnA 227 4.39e+01 d.115.1.2 105821 2bvbA 137 4.48e+01 1ro7A 259 4.52e+01 c.130.1.1 97667 1s1qA 145 4.69e+01 d.20.1.2 98351 1s3eA 520 4.75e+01 c.3.1.2,d.16.1.5 98426,98427 1aokB 122 4.76e+01 1poa a.133.1.2 19561 1dz3A 130 4.83e+01 1dz3A c.23.1.1 31105 1pvyA 227 4.84e+01 d.115.1.2 95195 1go3E 187 4.85e+01 b.40.4.5,d.230.1.1 83054,83055 1g8eA 116 4.87e+01 1g8eA a.145.1.1 60346 1w2yA 229 5.00e+01 a.204.1.1 109140 1qndA 123 5.01e+01 1qndA d.106.1.1 40794 1wj7A 104 5.05e+01 1scmB 145 5.07e+01 1wdcB a.39.1.5 17304 1pswA 348 5.10e+01 c.87.1.7 88287 1qjtA 99 5.21e+01 1eh2 a.39.1.6 17335 1fv0A 121 5.33e+01 a.133.1.2 70147 1ykjA 394 5.49e+01 2azqA 311 5.52e+01 1s6cA 183 5.56e+01 a.39.1.5 98594 1zpwX 90 5.67e+01 2f2gA 221 5.68e+01 1dapA 320 5.70e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 2bj7A 138 5.71e+01 1y9wA 140 5.71e+01 1lqwA 183 5.84e+01 d.167.1.1 74210 2cs2A 134 6.04e+01 1kpmA 121 6.07e+01 a.133.1.2 72844 2mysB 166 6.18e+01 1wdcB a.39.1.5 17308 1a5v 162 6.21e+01 1cxqA c.55.3.2 33629 3dapA 320 6.27e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1ezvD 245 6.28e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1tk4A 121 6.33e+01 a.133.1.2 107073 2g6fX 59 6.33e+01 1f06A 320 6.34e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 2eifA 136 6.41e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1bgj 394 6.43e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1cj3A 392 6.47e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1tj9A 121 6.47e+01 a.133.1.2 107015 2g58A 121 6.58e+01 1asu 162 6.59e+01 1cxqA c.55.3.2 33626 1dxjA 242 6.59e+01 1cnsA d.2.1.1 36244 1vsd 152 6.68e+01 1cxqA c.55.3.2 33625 1obwA 175 6.83e+01 2prd b.40.5.1 25416 1pbe 394 6.87e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1ihjA 98 6.96e+01 1pdr b.36.1.1 62382 1zwpA 121 6.97e+01 1xj4A 119 6.97e+01 1yovA 537 7.09e+01 1tu9A 134 7.10e+01 a.1.1.2 107320 1qg6A 261 7.15e+01 1eny c.2.1.2 29919 2phh 394 7.16e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1owfB 94 7.18e+01 a.55.1.1 87488 1b2vA 188 7.31e+01 1b2vA d.35.1.1 38532 1u2fA 90 7.44e+01 1u2fA d.58.7.1 39168 1pkhA 204 7.51e+01 b.85.4.1 94832 1fnd 314 7.54e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1ojaA 520 7.54e+01 c.3.1.2,d.16.1.5 93096,93097 1sceA 112 7.56e+01 1puc d.97.1.1 40676 1dk0A 188 7.69e+01 1b2vA d.35.1.1 38530 1sqzA 121 7.70e+01 a.133.1.2 98975 2ak5A 64 7.72e+01 1k9uA 78 7.85e+01 a.39.1.10 84348 2a9mL 110 7.89e+01 1k0iA 394 7.90e+01 c.3.1.2,d.16.1.2 67942,67943 1pt1A 143 8.13e+01 b.52.2.1 95084 1ycrA 109 8.18e+01 1ycqA a.42.1.1 17420 1fnc 314 8.20e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1kb9D 246 8.33e+01 a.3.1.3,f.23.11.1 77317,77318 1at3A 247 8.35e+01 1at3A b.57.1.1 27021 1hgxA 183 8.36e+01 1tc1A c.61.1.1 34027 1weuA 91 8.38e+01 1gosA 520 8.41e+01 c.3.1.2,d.16.1.5 65425,65426 1ntyA 311 8.46e+01 a.87.1.1,b.55.1.1 103873,103874 1aoiB 87 8.50e+01 1aoiB a.22.1.1 16470 1y4oA 104 8.51e+01 1jwiB 125 8.71e+01 d.169.1.1 67384 1banA 110 8.72e+01 1b20A d.1.1.2 36197 1jltB 122 8.89e+01 a.133.1.2 66868 1h6kX 97 9.00e+01 d.58.7.1 60684