# 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 1s5uA 138 6.15e-20 d.38.1.1 98573 1z54A 132 9.32e-20 2gf6A 135 1.32e-17 1lo7A 141 1.52e-17 d.38.1.1 74144 1bvqA 141 2.39e-17 1bvqA d.38.1.1 38542 2cyeA 133 7.83e-17 1njkA 156 1.75e-15 d.38.1.1 85818 2av9A 147 5.00e-15 2aliA 158 5.39e-13 1yliA 153 4.62e-08 1vpmA 169 1.04e-05 2b3nA 159 3.02e-05 2gvhA 288 5.22e-05 2h4uA 145 9.37e-05 1u1zA 168 1.23e-04 d.38.1.6 107602 1ixlA 131 2.14e-04 d.38.1.5 90717 1c8uA 285 1.48e-03 1c8uA d.38.1.3,d.38.1.3 38547,38548 1j1yA 136 2.89e-03 d.38.1.5 90776 2essA 248 3.37e-03 1wluA 136 3.43e-03 2cwzA 141 3.58e-03 1zkiA 133 4.00e-03 1iq6A 134 9.91e-03 d.38.1.4 76755 2fs2A 151 1.81e-02 1psuA 140 1.84e-02 d.38.1.5 88285 1o0iA 138 6.74e-02 d.38.1.5 86532 2b6eA 146 6.83e-02 1q4uA 151 1.81e-01 d.38.1.5 95828 1t82A 155 2.65e-01 d.38.1.5 106639 1z6bA 154 3.29e-01 2bi0A 337 5.83e-01 4xiaA 393 9.82e-01 4xis c.1.15.3 29439 1vh5A 148 1.00e+00 d.38.1.5 100642 1adqL 213 1.60e+00 8fabA b.1.1.1,b.1.1.2 20272,21272 1mrzA 293 2.99e+00 b.43.5.1,c.26.1.3 91452,91453 1vm7A 311 3.65e+00 c.72.1.1 108884 1b6fA 159 4.15e+00 1bv1 d.129.3.1 41316 2cwcA 303 4.47e+00 1hjsA 332 4.57e+00 c.1.8.3 83492 1al3 324 5.70e+00 1al3 c.94.1.1 35835 1i3zA 103 5.79e+00 d.93.1.1 83667 1zxkA 98 5.80e+00 1a1oA 276 6.52e+00 1agdA b.1.1.2,d.19.1.1 20751,38265 2arsA 262 6.57e+00 1neu 124 7.89e+00 1neu b.1.1.1 19704 1ah9 71 8.67e+00 1ah9 b.40.4.5 25330 1bv1 159 9.83e+00 1bv1 d.129.3.1 41313 2c8mA 262 1.01e+01 2azpA 318 1.04e+01 2fi1A 190 1.04e+01 1a1nA 276 1.15e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1u8fO 335 1.19e+01 1liiA 363 1.22e+01 c.72.1.1 73921 1y43B 173 1.23e+01 1pxfA 111 1.26e+01 b.40.4.4 88341 2a74A 643 1.36e+01 2b7uA 257 1.37e+01 1a1mA 278 1.45e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1e2o 233 1.47e+01 1eaf c.43.1.1 32631 1gkzA 388 1.54e+01 a.29.5.1,d.122.1.4 65268,65269 1ecfB 504 1.54e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1te5A 257 1.56e+01 d.153.1.1 106795 1u7kA 131 1.60e+01 1gkxA 388 1.67e+01 a.29.5.1,d.122.1.4 65266,65267 1qfoA 119 1.73e+01 1qfoA b.1.1.1 19708 2bsjA 133 1.83e+01 1mmuA 347 1.85e+01 b.30.5.4 79303 1ecfA 504 1.92e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2absA 383 1.97e+01 1s9rA 410 2.11e+01 d.126.1.4 98758 1rbp 182 2.18e+01 1aqb b.60.1.1 27085 1qfoC 119 2.21e+01 1qfoA b.1.1.1 19710 1lxyA 409 2.23e+01 d.126.1.4 91154 1l7jA 347 2.27e+01 b.30.5.4 73660 2bnkA 67 2.37e+01 1svb 395 2.39e+01 1svb b.1.18.4,f.10.1.1 21814,43827 1eza 259 2.41e+01 1zymA a.60.10.1,c.8.1.2 18113,30708 1js8A 394 2.42e+01 a.86.1.1,b.112.1.1 67219,67220 1blr 137 2.43e+01 1hmt b.60.1.2 27208 1cmbA 104 2.45e+01 1cmbA a.43.1.5 17460 1cye 129 2.47e+01 3chy c.23.1.1 31077 1fm4A 159 2.48e+01 1bv1 d.129.3.1 76186 1s72N 187 2.50e+01 c.55.4.1 105333 1b2wL 214 2.51e+01 8fabA b.1.1.1,b.1.1.2 20306,21298 1kb5A 115 2.51e+01 1tvdA b.1.1.1 20611 1qmrA 159 2.56e+01 1bv1 d.129.3.1 41314 1vqoN 187 2.57e+01 1csyA 112 2.63e+01 1lckA d.93.1.1 40519 1dgmA 363 2.67e+01 1bx4A c.72.1.1 34936 1pp7U 131 2.67e+01 a.4.5.44 94973 1ffkK 186 2.68e+01 1ffkK c.55.4.1 33731 1widA 130 2.72e+01 1l7jB 347 2.78e+01 b.30.5.4 73661 6paxA 133 2.83e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1a0i 348 2.90e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1bd2D 204 2.94e+01 1tcrA b.1.1.1,b.1.1.2 20622,21557 1g79A 218 2.96e+01 1ci0A b.45.1.1 25752 1cmcA 104 3.01e+01 1cmbA a.43.1.5 17462 2fhi 147 3.03e+01 1fit d.13.1.1 37505 1y2tA 142 3.08e+01 1hr0W 71 3.16e+01 1ah9 b.40.4.5 25329 1adl 131 3.17e+01 1hmt b.60.1.2 27186 1jj2M 186 3.19e+01 1ffkK c.55.4.1 63098 2c5rA 67 3.31e+01 1bcpC 199 3.43e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 1yg9A 330 3.46e+01 1cmaA 104 3.62e+01 1cmbA a.43.1.5 17486 1p3dA 475 3.63e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1mxmA 254 3.67e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1to6A 371 3.72e+01 c.141.1.1 107170 1a9eA 277 3.72e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 1jbeA 128 3.79e+01 3chy c.23.1.1 62845 1pkp 150 3.79e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1drmA 131 3.85e+01 1drmA d.110.3.2 40908 2a8mA 420 3.86e+01 1mpgA 282 3.87e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1hbq 183 3.89e+01 1aqb b.60.1.1 27078 1gm5A 780 3.91e+01 a.24.21.1,b.40.4.9,c.37.1.19,c.37.1.19 65298,65299,65300,65301 1ikpA 613 3.97e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1ospL 214 4.05e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1gqyA 475 4.15e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1f3mA 80 4.16e+01 1f3mA j.66.1.1 46358 1smoA 119 4.19e+01 b.1.1.1 105764 1u0tA 307 4.19e+01 e.52.1.1 107567 2fa8A 105 4.21e+01 1ehkB 168 4.22e+01 2cuaA b.6.1.2,f.17.2.1 23041,43625 1bx4A 345 4.33e+01 1bx4A c.72.1.1 34935 1kmnD 424 4.47e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1lkcA 364 4.59e+01 c.67.1.1 73978 1zymA 258 4.62e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1y8oA 419 4.69e+01 1g7nA 131 4.76e+01 b.60.1.2 83274 1lid 131 4.82e+01 1hmt b.60.1.2 27184 2ffjA 300 4.95e+01 1nszA 347 4.95e+01 b.30.5.4 80724 1jfiB 179 5.01e+01 1jfiB a.22.1.3 62937 1plq 258 5.06e+01 1plq d.131.1.2,d.131.1.2 41388,41389 2phh 394 5.07e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1zhcA 76 5.08e+01 1h6uA 308 5.12e+01 b.1.18.15,c.10.2.1 65688,65689 2booA 247 5.14e+01 1kt6A 183 5.22e+01 b.60.1.1 84466 1lswA 131 5.32e+01 d.110.3.2 78181 1fobA 334 5.47e+01 c.1.8.3 83255 1cj3A 392 5.48e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1oz2A 331 5.48e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1hbp 183 5.52e+01 1aqb b.60.1.1 27079 1txqA 93 5.53e+01 1owqA 361 5.54e+01 c.1.8.5,d.26.3.1 104041,104042 1fngA 192 5.65e+01 1iakA b.1.1.2,d.19.1.1 59904,59905 1plr 258 5.72e+01 1plq d.131.1.2,d.131.1.2 41390,41391 2tmkA 216 5.77e+01 3tmkA c.37.1.1 31928 1k0iA 394 5.84e+01 c.3.1.2,d.16.1.2 67942,67943 1cy9A 264 6.05e+01 1ecl e.10.1.1 43236 1sczA 233 6.05e+01 c.43.1.1 98802 2bshA 125 6.07e+01 2a8jA 420 6.07e+01 1ejeA 192 6.10e+01 1ejeA b.45.1.2 25757 3chy 128 6.11e+01 3chy c.23.1.1 31038 1f39A 101 6.11e+01 1umuA b.87.1.1 28386 1ic1A 190 6.14e+01 1zxq b.1.1.3,b.1.1.4 21654,21690 1wgvA 124 6.35e+01 1gm6A 175 6.42e+01 b.60.1.1 70272 1q2lA 939 6.43e+01 1f8rA 498 6.69e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1hyvA 166 6.73e+01 1b9dA c.55.3.2 61424 1fneA 192 6.76e+01 1iakA b.1.1.2,d.19.1.1 59896,59897 1rck 106 6.77e+01 9rnt d.1.1.4 36053 1otvA 259 6.82e+01 a.132.1.4 93526 1lkzA 219 6.88e+01 c.124.1.4,d.58.40.1 73991,73992 1tyjA 170 6.89e+01 1ew3A 159 6.92e+01 1mup b.60.1.1 27114 1xh3A 276 6.98e+01 1ox0A 430 7.06e+01 c.95.1.1,c.95.1.1 87495,87496 1ab0 131 7.14e+01 1hmt b.60.1.2 27190 1ecrA 309 7.18e+01 1ecrA e.2.1.1 42678 1mbmA 198 7.36e+01 b.47.1.3 78916 1gpuA 680 7.36e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1c7nA 399 7.39e+01 1d2fA c.67.1.3 34413 1xn8A 131 7.43e+01 1mjoA 104 7.46e+01 1cmbA a.43.1.5 17466 1bt3A 345 7.48e+01 1bt3A a.86.1.2 18507 2cdcA 366 7.49e+01 1ynfA 458 7.49e+01 1hbyA 123 7.49e+01 7rsa d.5.1.1 60936 1g99A 408 7.53e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1gm7A 209 7.56e+01 d.153.1.2 65302 1n8vA 112 7.60e+01 a.118.21.1 85457 2ghsA 326 7.62e+01 1hcl 298 7.62e+01 1hcl d.144.1.7 41593 1j2mA 99 7.68e+01 a.165.1.1 84018 1ln4A 104 7.68e+01 d.68.4.1 74043 1ylnA 252 7.70e+01 1ieaA 192 7.72e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 1bgj 394 7.73e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 2f46A 156 7.75e+01 1k78A 149 7.77e+01 a.4.1.5,a.4.1.5 68255,68256 1ckiA 317 7.82e+01 1csn d.144.1.7 41660 1e4iA 447 7.83e+01 1e70M c.1.8.4 59225 1ywsA 82 7.87e+01 1itxA 419 7.92e+01 c.1.8.5,d.26.3.1 71425,71426 1pv1A 299 7.92e+01 1g7eA 122 8.06e+01 1g7eA c.47.1.7 33055 1b5tA 275 8.10e+01 1b5tA c.1.23.1 29676 1aqb 183 8.17e+01 1aqb b.60.1.1 27084 2nlrA 234 8.20e+01 2nlrA b.29.1.11 24344 1q41A 424 8.21e+01 d.144.1.7 95774 1pbe 394 8.23e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1trkA 680 8.24e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 1tkaA 678 8.28e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31815,31816,33096 1ioaA 240 8.34e+01 1led b.29.1.1 24168 1zz1A 369 8.49e+01 1xj4A 119 8.56e+01 1nlbH 218 8.58e+01 b.1.1.1,b.1.1.2 80621,80622 2ftxA 90 8.62e+01 2ewrA 170 8.68e+01 1d2eA 397 8.70e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1jykA 254 8.71e+01 c.68.1.13 67458 1b65A 375 8.71e+01 1b65A d.154.1.1 42020 2b8tA 223 8.82e+01 1ly2A 130 8.86e+01 g.18.1.1,g.18.1.1 74335,74336 1jf0A 195 8.90e+01 1ej3A a.39.1.5 62926 1x7lA 149 8.92e+01 b.2.10.1 109500 1iam 185 8.98e+01 1zxq b.1.1.3,b.1.1.4 21653,21689