# 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.soe.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 3dcfA 218 1.35e-16 3bcgA 215 6.08e-16 1vi0A 206 6.71e-16 a.4.1.9,a.121.1.1 100720,100721 3lhqA 220 2.71e-15 2uxuA 210 5.09e-15 2xdnA 210 5.87e-15 3bruA 222 8.76e-15 3himA 211 1.52e-14 2w53A 219 2.89e-14 3locA 212 3.07e-14 1pb6A 212 3.16e-14 a.4.1.9,a.121.1.1 88017,88018 2hytA 197 3.17e-14 3cdlA 203 5.23e-14 2ibdA 204 7.73e-14 2genA 197 8.20e-14 a.4.1.9,a.121.1.1 135062,135063 3he0A 196 8.71e-14 3knwA 212 9.07e-14 3f1bA 203 9.41e-14 3dewA 206 1.10e-13 3lwjA 202 1.32e-13 3e7qA 215 1.34e-13 1zkgA 212 1.57e-13 a.4.1.9,a.121.1.1 125194,125195 1z77A 200 2.36e-13 a.4.1.9,a.121.1.1 124588,124589 2id6A 202 2.38e-13 a.4.1.9,a.121.1.1 147624,147625 2f07A 197 2.47e-13 2iekA 200 2.77e-13 a.4.1.9,a.121.1.1 147647,147648 2eh3A 179 2.79e-13 1rktA 205 2.99e-13 a.4.1.9,a.121.1.1 97623,97624 1ui5A 215 4.29e-13 a.4.1.9,a.121.1.1 107856,107857 2jj7A 186 5.03e-13 3kz9A 206 5.21e-13 2fx0A 201 5.31e-13 a.4.1.9,a.121.1.1 134269,134270 3crjA 199 5.32e-13 3bqzA 194 5.45e-13 2g7sA 194 6.78e-13 a.4.1.9,a.121.1.1 134737,134738 2iaiA 230 7.67e-13 3br3A 194 7.75e-13 3br2A 194 8.01e-13 3btiA 188 9.27e-13 a.4.1.9,a.121.1.1 155566,155567 3dpjA 194 9.49e-13 2of7A 260 1.22e-12 3br5A 194 1.29e-12 1jt6A 188 1.49e-12 a.4.1.9,a.121.1.1 67247,67248 1qvtA 194 1.53e-12 a.4.1.9,a.121.1.1 104602,104603 2raeA 207 1.63e-12 2g3bA 208 1.84e-12 a.4.1.9,a.121.1.1 134558,134559 3bhqA 211 1.96e-12 3eupA 204 2.35e-12 3ccyA 203 2.49e-12 2i10A 202 2.88e-12 a.4.1.9,a.121.1.1 136960,136961 2pbxA 203 3.16e-12 3g7rA 221 4.93e-12 1t56A 216 5.64e-12 a.4.1.9,a.121.1.1 106428,106429 3g1lA 256 6.00e-12 3g1oA 255 6.55e-12 1sgmA 191 6.98e-12 a.4.1.9,a.121.1.1 105537,105538 3g1mA 236 7.34e-12 3mvpA 217 7.52e-12 2qibA 231 8.62e-12 2hyjA 200 1.36e-11 a.4.1.9,a.121.1.1 147456,147457 2gfnA 209 1.90e-11 a.4.1.9,a.121.1.1 135101,135102 3gziA 218 1.95e-11 2d6yA 202 3.15e-11 a.4.1.9,a.121.1.1 131313,131314 2nx4A 194 3.76e-11 2qwtA 196 6.42e-11 2fbqA 235 7.56e-11 a.4.1.9,a.121.1.1 133256,133257 2q24A 194 8.11e-11 2qtqA 213 9.16e-11 2np5A 203 1.06e-10 a.4.1.9,a.121.1.1 138424,138425 2fq4A 192 1.18e-10 a.4.1.9,a.121.1.1 133937,133938 2dg8A 193 1.30e-10 3bniA 229 1.45e-10 3jsjA 190 1.80e-10 2qcoA 210 4.46e-10 2fd5A 180 4.62e-10 a.4.1.9,a.121.1.1 133291,133292 3b81A 203 4.82e-10 3cjdA 198 5.21e-10 2dg7A 195 6.67e-10 2vkeA 208 8.19e-10 a.4.1.9,a.121.1.1 153221,153222 3bjbA 207 8.52e-10 3colA 196 8.86e-10 2o7oA 207 1.05e-09 a.4.1.9,a.121.1.1 138930,138931 2oerA 214 1.09e-09 2rekA 199 1.16e-09 2oi8A 216 1.43e-09 a.4.1.9,a.121.1.1 148778,148779 2tct 207 1.43e-09 2tct 2id3A 225 1.52e-09 a.4.1.9,a.121.1.1 137261,137262 2zcmA 192 2.11e-09 2guhA 214 2.68e-09 3bqyA 209 2.89e-09 1a6i 217 3.15e-09 2tct 2zb9A 214 3.16e-09 2yveA 185 3.28e-09 1z0xA 220 5.56e-09 a.4.1.9,a.121.1.1 124334,124335 3c2bA 221 5.79e-09 2rasA 212 6.23e-09 2vprA 207 9.78e-09 3frqA 195 1.08e-08 2vkvA 208 1.18e-08 a.4.1.9,a.121.1.1 153230,153231 2zcxA 231 1.20e-08 3cwrA 208 1.84e-08 2hxoA 237 2.61e-08 3fiwA 211 2.92e-08 3kkcA 177 3.57e-08 1zk8A 183 3.64e-08 a.4.1.9,a.121.1.1 125177,125178 2hkuA 215 5.32e-08 a.4.1.9,a.121.1.1 147302,147303 2o7tA 199 5.43e-08 a.4.1.9,a.121.1.1 148670,148671 3g56A 195 5.89e-08 2v57A 190 7.16e-08 1t33A 224 9.06e-08 a.4.1.9,a.121.1.1 106295,106296 2g7lA 243 1.38e-07 a.4.1.9,a.121.1.1 134734,134735 2optA 234 1.82e-07 2qkoA 215 2.00e-06 2iu5A 195 2.39e-06 a.4.1.9,a.121.1.1 147801,147802 2g7gA 213 4.89e-06 a.4.1.9,a.121.1.1 134732,134733 3kkdA 237 3.23e-05 2v6kA 214 4.13e-01 2q7sA 290 4.35e+00 c.56.5.9 150103 1nr6A 473 4.46e+00 a.104.1.1 92085 2vvyA 169 5.37e+00 2fr7A 412 5.52e+00 2ikqA 270 6.31e+00 2ivnA 330 7.06e+00 2jjzA 150 8.09e+00 2pg4A 95 8.17e+00 a.4.5.48 149455 2i2xB 258 9.26e+00 2zydA 480 9.60e+00 1s7zA 117 1.01e+01 a.159.3.1 98715 3c1mA 473 1.04e+01 1twfB 1224 1.05e+01 e.29.1.1 112726 1dt6A 473 1.11e+01 1dt6A a.104.1.1 18977 2jjzB 150 1.19e+01 2douA 376 1.38e+01 3fbxA 559 1.38e+01 2g2bA 150 1.47e+01 2pgd 482 1.62e+01 2pgd 2pgdA 482 1.62e+01 a.100.1.1,c.2.1.6 18778,30190 1u0mA 382 1.64e+01 c.95.1.2,c.95.1.2 107557,107558 1b5l 172 1.71e+01 1b5l 1b5lA 172 1.71e+01 a.26.1.3 16900 1wpoA 256 1.72e+01 1lay b.57.1.1 27012 2q0zX 339 1.74e+01 a.289.1.1,b.1.18.22 149993,149994 2zs0A 140 1.84e+01 3l39A 227 1.84e+01 2ig3A 127 1.89e+01 2h0qA 261 1.92e+01 2h7bA 105 1.93e+01 a.277.1.1 147237 2qxlA 658 1.94e+01 2a6hC 1119 1.95e+01 e.29.1.1 126264 2zygA 480 2.12e+01 2hi0A 240 2.18e+01 2vywA 148 2.30e+01 3ikbA 198 2.35e+01 1yzfA 195 2.35e+01 c.23.10.5 124275 3f3fC 570 2.40e+01 1gwcA 230 2.42e+01 a.45.1.1,c.47.1.5 70660,70661 1h97A 147 2.45e+01 1h97A a.1.1.2 60812 1ka2A 499 2.51e+01 d.92.1.5 77305 1wc3A 219 2.54e+01 d.58.29.1 114495 1kfrA 147 2.58e+01 a.1.1.2 72424 3fwnA 480 2.60e+01 3gl1A 387 2.66e+01 2bmaA 470 2.67e+01 1ulyA 192 2.68e+01 a.4.5.58 113297 1y1uA 585 2.73e+01 2g29A 417 2.73e+01 3i9tA 263 2.75e+01 3hz6A 511 2.77e+01 3devA 320 2.78e+01 3epuA 144 2.87e+01 2oxoA 103 2.92e+01 1xyfA 436 2.97e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1uw4B 248 2.97e+01 a.118.1.14 100072 1j9yA 385 2.99e+01 1j9yA c.1.8.3 62791 2oikA 154 3.03e+01 d.13.1.1 148780 1i6vC 1118 3.07e+01 e.29.1.1 61856 1a0eA 443 3.09e+01 1a0cA c.1.15.3 29537 2owrA 218 3.14e+01 3lg6A 235 3.14e+01 2d2mA 140 3.16e+01 1jnrA 643 3.22e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2wg8A 129 3.23e+01 1x9fA 151 3.24e+01 a.1.1.2 114983 1b5qA 472 3.27e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1j1jA 240 3.28e+01 a.118.16.1 90762 2e7uA 424 3.31e+01 1j93A 353 3.43e+01 c.1.22.1 66454 3fruA 269 3.45e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 2xd7A 193 3.57e+01 1z8oA 404 3.67e+01 a.104.1.1 124722 2czlA 272 3.69e+01 c.94.1.1 131055 3c8eA 288 3.71e+01 3d2fA 675 3.75e+01 1x9dA 538 3.77e+01 a.102.2.1 121810 1qs1A 462 3.77e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 3hx3A 316 3.79e+01 1sh5A 245 3.80e+01 a.40.1.1,a.40.1.1 105543,105544 1hqmC 1119 3.80e+01 i.8.1.1 45974 1bf5A 545 3.83e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 2wiyA 394 3.84e+01 3i1hA 161 3.92e+01 2zfoA 140 3.97e+01 1jipA 403 4.00e+01 a.104.1.1 66748 1ljrA 244 4.02e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 2wg8B 129 4.10e+01 1uuqA 440 4.16e+01 c.1.8.3 100015 1w33A 181 4.22e+01 2wg7A 130 4.26e+01 2e8gA 241 4.27e+01 1fo3A 460 4.27e+01 1dl2A a.102.2.1 18845 1uwsA 489 4.29e+01 c.1.8.4 108073 2gu2A 312 4.31e+01 c.56.5.7 147177 3fzhA 381 4.35e+01 2j5bA 348 4.42e+01 2vosA 487 4.53e+01 3hzjA 310 4.64e+01 1t9mA 214 4.67e+01 b.45.1.1 112364 2bjcA 62 4.70e+01 a.35.1.5 128620 1wtyA 119 4.70e+01 a.24.16.2 114880 2d1zA 436 4.78e+01 1du6A 64 4.79e+01 1akhA a.4.1.1 16002 1qs2A 401 4.84e+01 1qs1A d.166.1.1,d.166.1.1 42268,42269 1rz4A 226 4.87e+01 a.4.5.53,a.118.1.18 105131,105132 1eyeA 280 4.87e+01 1aj2 c.1.21.1 29672 3m3mA 210 4.89e+01 1pufB 73 4.92e+01 a.4.1.1 95132 2csbA 519 4.94e+01 a.60.2.4,a.60.2.4,a.60.2.4,a.60.2.4,a.267.1.1 130751,130752,130753,130754,130755 1eia 207 4.95e+01 1eia 1a0cA 438 4.98e+01 1a0cA c.1.15.3 29529 2fjbA 643 4.98e+01 1q59A 172 5.03e+01 f.1.4.1 95881 1odoA 408 5.17e+01 a.104.1.1 92783 1e6bA 221 5.25e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 3gzjA 258 5.25e+01 1dd9A 338 5.37e+01 1dd9A e.13.1.1 43254 2kd1A 118 5.38e+01 1cmnA 402 5.38e+01 1rom a.104.1.1 18958 1sctB 151 5.38e+01 3sdhA a.1.1.2 15003 1jfbA 404 5.40e+01 a.104.1.1 66624 1opc 110 5.49e+01 1opc 1opcA 110 5.49e+01 a.4.6.1 16231 2grcA 129 5.50e+01 1yhuB 144 5.56e+01 1tz9A 367 5.67e+01 c.1.15.6 107466 1bkdS 439 5.73e+01 1bkdS a.117.1.1 19111 3kl4A 433 5.78e+01 3hyhA 275 5.79e+01 1mw7A 240 5.79e+01 e.39.1.1 79557 1oj5A 132 5.80e+01 d.110.3.8 93087 1dl2A 511 5.80e+01 1dl2A a.102.2.1 18844 1bupA 386 5.81e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1yslB 402 5.95e+01 1j8yF 297 6.04e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1kay 381 6.07e+01 1ba1 1b72B 87 6.08e+01 1akhA a.4.1.1 16001 3kklA 244 6.12e+01 2jkvA 505 6.12e+01 2q8uA 336 6.13e+01 2q4zA 312 6.13e+01 1xg2B 153 6.14e+01 2zigA 297 6.15e+01 1g59A 468 6.18e+01 a.97.1.1,c.26.1.1 60257,60258 1djxB 624 6.28e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 2ve7C 250 6.29e+01 2e2wA 113 6.31e+01 2pgwA 384 6.38e+01 1ba1 386 6.39e+01 1ba1 3hbfA 454 6.40e+01 3eweB 564 6.41e+01 3ljkA 543 6.43e+01 3k2oA 336 6.44e+01 1f24A 402 6.50e+01 1rom a.104.1.1 18953 1odzA 386 6.50e+01 c.1.8.3 86889 1po5A 476 6.53e+01 a.104.1.1 94963 3ihjA 498 6.62e+01 1rom 403 6.67e+01 1rom 1yizA 429 6.68e+01 c.67.1.1 123375 2plc 274 6.73e+01 2plc 2plcA 274 6.73e+01 c.1.18.2 29614 3ii6X 263 6.78e+01 3f7wA 288 6.79e+01 1ltlA 279 6.83e+01 b.40.4.11 84701 1bgpA 309 6.84e+01 a.93.1.1 18690 2xanA 451 6.93e+01 1cqxA 403 7.00e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 3id6A 268 7.04e+01 3dfgA 162 7.09e+01 3c4rA 151 7.12e+01 3mydA 365 7.20e+01 3gnpA 488 7.22e+01 1j09A 468 7.26e+01 a.97.1.1,c.26.1.1 77025,77026 2yqcA 486 7.29e+01 1j8mF 297 7.32e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2o4cA 380 7.37e+01 2imsA 171 7.42e+01 3ll6A 337 7.44e+01 2ovjA 201 7.48e+01 2aexA 346 7.49e+01 1pyaB 228 7.51e+01 1pyaB 1yslA 402 7.52e+01 1n4qB 377 7.54e+01 a.102.4.3 91636 1pbgA 468 7.60e+01 1e70M c.1.8.4 28946 3d4iA 273 7.61e+01 2astA 159 7.68e+01 1gln 468 7.72e+01 1gln 2whmA 385 7.73e+01 2qasA 157 7.73e+01 2wflA 264 7.76e+01 1sxrA 183 7.87e+01 d.118.1.1 106101 1b37B 472 7.87e+01 1b37B c.3.1.2,d.16.1.5 30390,37954 2dcfA 392 7.92e+01 e.3.1.1 146485 3c3rA 380 7.94e+01 3gf3A 588 7.99e+01