# 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 1o20A 427 4.98e-64 c.82.1.1 86556 1ad3A 452 8.37e-51 1ad3A c.82.1.1 35335 1qi6A 475 2.96e-42 1euhA c.82.1.1 35373 1bxsA 501 8.56e-42 1bpwA c.82.1.1 35357 1euhA 475 3.20e-41 1euhA c.82.1.1 35369 1bpwA 503 5.46e-41 1bpwA c.82.1.1 35365 1a4sA 503 6.96e-41 1bpwA c.82.1.1 35361 1ag8A 499 1.05e-40 1bpwA c.82.1.1 35341 1o04A 500 6.95e-40 c.82.1.1 86508 1wndA 495 1.70e-38 2bjkA 516 2.62e-36 1uzbA 516 4.93e-36 c.82.1.1 100220 1uxtA 501 1.26e-33 c.82.1.1 108125 1ez0A 510 4.49e-22 1eyyA c.82.1.1 35385 1eyyA 510 4.58e-22 1eyyA c.82.1.1 35389 1dt9A 437 4.08e-01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1k75A 434 4.50e-01 c.82.1.2 68253 2be3A 226 1.52e+00 1v8gA 329 1.73e+00 a.46.2.1,c.27.1.1 100505,100506 1mw5A 187 2.21e+00 d.259.1.1 91477 1vjuA 309 2.65e+00 d.248.1.1 100835 1kaeA 434 3.04e+00 c.82.1.2 72247 1llnA 262 3.18e+00 d.165.1.1 84625 1neeA 138 3.38e+00 d.241.1.1,g.59.1.1 91841,91842 1nzoA 363 4.04e+00 b.105.1.1,e.3.1.1 92383,92384 1z6fA 363 4.37e+00 1knvA 293 5.19e+00 c.52.1.7 68707 1juk 248 5.25e+00 1a53 c.1.2.4 28567 1t56A 216 5.51e+00 a.4.1.9,a.121.1.1 106428,106429 2c3zA 222 6.54e+00 1oi7A 288 6.86e+00 c.2.1.8,c.23.4.1 87049,87050 2dri 271 7.38e+00 2dri c.93.1.1 35637 1eqjA 511 7.51e+00 1ejjA c.105.1.1,c.76.1.3 59495,59496 2br9A 234 7.52e+00 1ru3A 732 7.77e+00 e.26.1.3 97835 1a53 247 7.93e+00 1a53 c.1.2.4 28564 1o98A 511 8.02e+00 c.105.1.1,c.76.1.3 86684,86685 1rzuA 485 8.64e+00 c.87.1.8 105140 1x42A 232 8.85e+00 2a5hA 416 1.00e+01 1vqzA 341 1.09e+01 1igs 248 1.14e+01 1a53 c.1.2.4 28565 1cfr 285 1.16e+01 1cfr c.52.1.7 33312 2blnA 305 1.17e+01 1pv1A 299 1.18e+01 1scuA 288 1.19e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1rj9A 304 1.21e+01 a.24.13.1,c.37.1.10 97553,97554 1m3uA 264 1.25e+01 c.1.12.8 84784 2scuA 288 1.25e+01 2scuA c.2.1.8,c.23.4.1 30303,31131 1gxlA 213 1.32e+01 d.215.1.1 70713 1xc3A 302 1.36e+01 1ejjA 511 1.44e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 2c60A 111 1.44e+01 1suwA 249 1.63e+01 e.52.1.1 106027 1rdr 461 1.64e+01 1rdr e.8.1.4 43116 1t98A 287 1.68e+01 2bbhA 269 1.75e+01 1zbmA 280 1.83e+01 1j6oA 268 1.85e+01 c.1.9.12 77088 1nftA 329 2.00e+01 1nnt c.94.1.2 35881 2etvA 346 2.05e+01 1wwkA 307 2.13e+01 1bgp 309 2.16e+01 1bgp a.93.1.1 18690 1tfaA 329 2.21e+01 1nnt c.94.1.2 35880 1kq8A 100 2.22e+01 a.4.5.14 68797 1jqeA 292 2.23e+01 c.66.1.19 71789 1z15A 344 2.31e+01 1p5fA 189 2.34e+01 c.23.16.2 94142 1y5eA 169 2.34e+01 2aotA 292 2.37e+01 2dkaA 544 2.42e+01 1a0cA 438 2.50e+01 1a0cA c.1.15.3 29529 1mdbA 539 2.51e+01 e.23.1.1 79008 1vbkA 307 2.61e+01 6pfkA 319 2.63e+01 3pfk c.89.1.1 35583 1wd7A 261 2.72e+01 1a12A 413 2.73e+01 1a12A b.69.5.1 27663 1pe0A 197 2.80e+01 c.23.16.2 88045 2a7wA 116 2.81e+01 1di0A 158 2.90e+01 1di0A c.16.1.1 30957 1z0xA 220 2.97e+01 1aew 174 2.99e+01 2fha a.25.1.1 16676 1gxjA 186 2.99e+01 d.215.1.1 70707 2ewrA 170 3.09e+01 1u7pA 164 3.14e+01 1gw5M 435 3.16e+01 b.2.7.1,d.110.4.2 70631,70632 2ganA 190 3.18e+01 2ddrA 306 3.20e+01 5abp 306 3.22e+01 8abp c.93.1.1 35651 2gaxA 135 3.24e+01 1e4fT 419 3.28e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1v7bA 185 3.29e+01 1dat 174 3.32e+01 2fha a.25.1.1 16677 1bap 306 3.36e+01 8abp c.93.1.1 35654 1cqxA 403 3.37e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1abe 306 3.40e+01 8abp c.93.1.1 35648 1yozA 116 3.40e+01 2fiuA 99 3.41e+01 8abp 306 3.42e+01 8abp c.93.1.1 35647 1kmvA 186 3.46e+01 c.71.1.1 72757 1qgjA 300 3.50e+01 1bgp a.93.1.1 18691 1z0sA 278 3.56e+01 1u0sA 86 3.66e+01 d.58.24.1 107565 1nnt 328 3.73e+01 1nnt c.94.1.2 35884 1qjbA 245 3.78e+01 1qjaA a.118.7.1 19202 2liv 344 3.79e+01 2liv c.93.1.1 35708 1ge9A 184 3.85e+01 1dd5A d.67.3.1 60463 3csuA 310 3.86e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1d4oA 184 3.93e+01 1d4oA c.31.1.4 31748 2b05A 246 3.98e+01 1hqkA 154 3.98e+01 c.16.1.1 65902 1zxxA 319 4.18e+01 2a0fA 310 4.19e+01 1sqiA 393 4.28e+01 d.32.1.3,d.32.1.3 105914,105915 1w2iA 91 4.30e+01 d.58.10.1 109127 1wy7A 207 4.36e+01 2a6cA 83 4.40e+01 1sazA 381 4.50e+01 1ig8A 486 4.61e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1vq0A 302 4.67e+01 2axhA 242 4.76e+01 1sxgA 280 5.00e+01 2fiyA 309 5.11e+01 1eyvA 156 5.13e+01 1eyvA a.79.1.1 18446 1at1A 310 5.14e+01 3csuA c.78.1.1,c.78.1.1 35168,35169 1ir6A 424 5.20e+01 c.107.1.2 71342 1nom 248 5.25e+01 1bpyA a.60.12.1,d.218.1.2 75929,75930 1j5uA 136 5.43e+01 d.208.1.1 71584 1z8uA 102 5.44e+01 1ekxA 311 5.45e+01 3csuA c.78.1.1,c.78.1.1 35088,35089 1aoeA 192 5.50e+01 1aoeA c.71.1.1 34923 1mkzA 172 5.51e+01 c.57.1.1 84998 1lopA 164 5.58e+01 2cpl b.62.1.1 27510 1rovA 857 5.60e+01 a.119.1.1,b.12.1.1 97674,97675 2b5dX 528 5.68e+01 1pil 112 5.69e+01 2pii d.58.5.1 39072 1rpl 251 5.70e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 1lnh 857 5.73e+01 1yge a.119.1.1,b.12.1.1 19237,23637 8dfr 189 5.75e+01 1aoeA c.71.1.1 34895 2c46A 241 5.77e+01 1b3mA 389 5.80e+01 1b3mA 2ew2A 316 5.93e+01 1tv9A 335 5.96e+01 1uetA 437 5.96e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1g6nA 210 6.00e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1i4jA 110 6.02e+01 d.55.1.1 76734 1go3F 107 6.02e+01 a.60.8.2 65407 1wcwA 261 6.06e+01 1l9fA 389 6.08e+01 c.3.1.2,d.16.1.3 73716,73717 1rypE 242 6.09e+01 1rypE d.153.1.4 41936 1nj4A 363 6.10e+01 b.105.1.1,e.3.1.1 80545,80546 1h3gA 601 6.14e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1sg6A 393 6.20e+01 e.22.1.1 105522 1bxeA 113 6.27e+01 1bxeA d.55.1.1 38898 1lb3A 182 6.27e+01 a.25.1.1 77873 4dfrA 159 6.32e+01 1vdrA c.71.1.1 34822 1ss4A 153 6.34e+01 d.32.1.6 105976 2cgpA 210 6.51e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 1t95A 240 6.54e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1wy2A 351 6.57e+01 1bykA 255 6.58e+01 1bykA c.93.1.1 35706 1eumA 165 6.70e+01 1eumA a.25.1.1 59507 1u0fA 564 6.76e+01 1rztA 331 6.79e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1ra6A 461 6.80e+01 e.8.1.4 104879 1uohA 226 6.88e+01 d.211.1.1 99690 1y4tA 322 6.93e+01 1pea 385 6.95e+01 1pea c.93.1.1 35662 1bax 94 7.09e+01 1bax a.61.1.3 18133 1bpb 248 7.12e+01 1bpyA a.60.12.1,d.218.1.2 75811,75812 1ddsA 159 7.12e+01 1vdrA c.71.1.1 34858 1xsnA 335 7.15e+01 1ca1 370 7.20e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1z3eA 132 7.30e+01 2bcqA 335 7.30e+01 1i9sA 210 7.30e+01 1i9sA c.45.1.1 62099 1vgyA 393 7.42e+01 c.56.5.4,d.58.19.1 100620,100621 2pii 112 7.43e+01 2pii d.58.5.1 39071 1x0lA 333 7.52e+01 1iy8A 267 7.53e+01 c.2.1.2 83774 1d7kA 421 7.54e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1ta9A 450 7.58e+01 1g6sA 427 7.68e+01 1eps d.68.2.2 39584 1i6xA 209 7.80e+01 a.4.5.4,b.82.3.2 83673,83674 1r89A 437 7.83e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1cx4A 305 7.94e+01 b.82.3.2,b.82.3.2 59099,59100 1iejA 332 7.94e+01 1nnt c.94.1.2 62328 1bpyA 335 7.97e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1ep3B 262 7.97e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1rcd 173 8.10e+01 2fha a.25.1.1 16687 1fa8A 135 8.14e+01 1qipA d.32.1.1 38486 1xhcA 367 8.20e+01 1hw5A 210 8.29e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1g7tA 594 8.33e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 2a61A 145 8.37e+01 1wgwA 99 8.38e+01 1jnyA 435 8.50e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ep2B 261 8.51e+01 1ep2B b.43.4.2,c.25.1.3 25666,31556 1draA 159 8.73e+01 1vdrA c.71.1.1 34831 1ttzA 87 8.75e+01 c.47.1.1 107309 1apc 106 8.83e+01 256bA a.24.3.1 16543 1kyqA 274 8.86e+01 c.2.1.11,e.37.1.1 73281,73282 2fclA 169 8.87e+01 1mdoA 393 8.87e+01 c.67.1.4 79013 1acmA 310 8.94e+01 3csuA c.78.1.1,c.78.1.1 35180,35181