# List of top-scoring protein chains for t04-100-30-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 1yr0A 175 2.82e-22 2bl1A 172 5.86e-21 1yvoA 172 6.26e-21 1vhsA 175 3.06e-20 d.108.1.1 100698 2ge3A 170 9.38e-20 1tiqA 180 4.56e-18 d.108.1.1 107010 1nslA 184 2.74e-17 d.108.1.1 86137 2ae6A 166 3.22e-17 2cy2A 174 3.56e-17 2fe7A 166 2.31e-16 2beiA 170 2.94e-16 1wwzA 159 5.73e-16 1z4eA 153 5.98e-15 2fckA 181 1.09e-14 1s3zA 165 5.83e-14 d.108.1.1 105250 1s7kA 182 6.81e-14 2b5gA 171 1.09e-13 1qsmA 152 2.02e-13 1qsmA d.108.1.1 40808 1y9kA 157 2.11e-13 1qsoA 149 2.62e-13 1qsmA d.108.1.1 40812 1u6mA 199 3.73e-13 1yreA 197 6.04e-13 1gheA 177 1.27e-12 d.108.1.1 76222 1i1dA 161 1.53e-12 1i21A d.108.1.1 61526 1on0A 158 3.46e-12 d.108.1.1 87095 1yx0A 159 4.03e-12 1i12A 160 5.46e-12 1i21A d.108.1.1 61515 1yvkA 163 5.64e-12 1mk4A 157 1.14e-11 d.108.1.1 84979 2a4nA 182 8.86e-11 1vkcA 158 9.26e-11 1n71A 180 1.05e-10 d.108.1.1 85370 1b87A 181 1.76e-10 1b87A d.108.1.1 40797 2c27A 315 1.78e-10 1cjwA 166 1.94e-10 1cjwA d.108.1.1 40818 2fl4A 149 2.94e-10 1p0hA 318 3.41e-10 d.108.1.1 93866 2fsrA 195 4.72e-10 1qstA 160 7.80e-10 1yghA d.108.1.1 40804 1q2yA 140 9.38e-10 d.108.1.1 95655 1z4rA 168 1.99e-09 2bswA 146 3.16e-09 2atrA 138 4.17e-09 1yghA 164 6.85e-09 1yghA d.108.1.1 40802 1bo4A 168 1.10e-08 1bo4A d.108.1.1 40798 1y7rA 133 2.37e-07 1xebA 150 4.14e-07 2g3aA 152 4.61e-07 1m4iA 181 5.27e-07 d.108.1.1 74457 2ganA 190 6.17e-07 1y9wA 140 1.35e-06 1sqhA 312 1.46e-06 d.108.1.5 98966 2aj6A 159 1.81e-06 1yk3A 210 3.98e-06 2d4pA 141 3.72e-05 1bob 320 4.21e-05 1bob d.108.1.1 40816 1fy7A 278 1.83e-03 1fy7A d.108.1.1 40817 2givA 295 2.40e-03 1yleA 342 1.99e-02 1iicA 422 1.06e-01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1svjA 156 1.82e-01 d.220.1.1 106049 1xmtA 103 2.49e-01 1ro5A 201 4.96e-01 d.108.1.3 105023 1pbjA 125 6.33e-01 d.37.1.1,d.37.1.1 94414,94415 1ne9A 335 8.63e-01 d.108.1.4,d.108.1.4 91839,91840 1o50A 157 8.70e-01 d.37.1.1,d.37.1.1 92478,92479 1zy9A 564 1.28e+00 1xfiA 367 1.31e+00 e.50.1.1 109584 1j7lA 264 1.48e+00 d.144.1.6 62697 1pvmA 184 1.53e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1fjgK 129 1.92e+00 1fjfK c.55.4.1 33733 1tuoA 464 1.99e+00 1nkiA 135 2.11e+00 d.32.1.2 91941 1vicA 262 2.58e+00 c.68.1.13 100756 1lqpA 135 2.83e+00 d.32.1.2 78151 1y8qA 346 3.12e+00 1zcoA 262 3.14e+00 1vecA 206 3.49e+00 c.37.1.19 100575 2fcjA 119 3.80e+00 1i8kA 107 3.91e+00 b.1.1.1 71130 2fbyA 205 4.05e+00 1pot 325 4.40e+00 1pot c.94.1.1 35807 2aboA 136 4.86e+00 1hrkA 359 5.17e+00 1hrkA c.92.1.1 61228 1vpqA 273 5.37e+00 1x8gA 227 5.45e+00 1y81A 138 6.26e+00 1h1yA 228 6.28e+00 c.1.2.2 76506 1te2A 226 6.64e+00 c.108.1.6 106792 1ss4A 153 6.93e+00 d.32.1.6 105976 1x8hA 228 7.18e+00 1kllA 130 7.38e+00 d.32.1.2 72720 1pjxA 314 7.44e+00 b.68.6.1 104167 1zlqA 502 7.68e+00 1zo0A 126 8.12e+00 1uiuA 502 8.43e+00 c.94.1.1 99434 1lvmA 229 8.50e+00 b.47.1.3 78243 1i9zA 347 9.00e+00 1i9yA d.151.1.2 62102 1i1qB 192 9.62e+00 1qdlB c.23.16.1 61544 1e1aA 314 9.81e+00 1e1aA b.68.6.1 59155 2bkkA 264 9.96e+00 1yueA 427 1.04e+01 1tfzA 424 1.04e+01 d.32.1.3,d.32.1.3 106886,106887 1w66A 232 1.07e+01 1s3eA 520 1.12e+01 c.3.1.2,d.16.1.5 98426,98427 1st0A 337 1.21e+01 d.13.1.3,d.246.1.1 98979,98980 1w44A 331 1.32e+01 1i0vA 104 1.34e+01 9rnt d.1.1.4 36054 1ojaA 520 1.39e+01 c.3.1.2,d.16.1.5 93096,93097 2ffcA 353 1.49e+01 1xttA 216 1.57e+01 1dmmA 131 1.58e+01 1opy d.17.4.3 38114 1qs0B 338 1.59e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 1ydgA 211 1.61e+01 1wddS 128 1.65e+01 1y1uA 585 1.66e+01 1hv9A 456 1.67e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 2f46A 156 1.69e+01 1oh0A 131 1.70e+01 d.17.4.3 87004 1u7eB 154 1.71e+01 2fp7B 172 1.72e+01 1m70A 190 1.73e+01 a.3.1.4,a.3.1.4 91200,91201 1rds 105 1.73e+01 9rnt d.1.1.4 36236 1yrlA 491 1.74e+01 1nv8A 284 1.74e+01 c.66.1.30 86224 1fxjA 331 1.82e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1ztuA 341 1.83e+01 1pj5A 830 1.87e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2h1nA 567 1.88e+01 2bkaA 242 1.95e+01 1wv9A 94 2.00e+01 1z7dA 433 2.02e+01 1l1zA 274 2.03e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1eq6A 189 2.03e+01 1eq6A d.107.1.1 40796 1d3gA 367 2.07e+01 1d3gA c.1.4.1 28600 2b0mA 393 2.07e+01 1bu8A 452 2.07e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1opy 131 2.08e+01 1opy d.17.4.3 38113 1a4iA 301 2.08e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 2c6qA 351 2.08e+01 1lkdA 297 2.16e+01 d.32.1.3,d.32.1.3 78059,78060 1vc4A 254 2.17e+01 c.1.2.4 100557 1kutA 230 2.17e+01 d.143.1.1 73017 2etgA 296 2.18e+01 1o6dA 163 2.22e+01 c.116.1.3 92567 1jvnA 555 2.24e+01 c.1.2.1,c.23.16.1 67355,67356 1zu0A 529 2.25e+01 1kyhA 276 2.29e+01 c.72.1.4 73222 1ecsA 126 2.32e+01 1ecsA d.32.1.2 59407 1h1dA 221 2.33e+01 c.66.1.1 83452 1ii5A 233 2.39e+01 c.94.1.1 62412 1k3xA 262 2.41e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1bmtA 246 2.43e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1oaoA 674 2.43e+01 e.26.1.2 86744 1pfvA 551 2.44e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2adgA 214 2.56e+01 2gi3A 476 2.57e+01 1vhmA 195 2.58e+01 d.110.2.1 100691 2gqrA 237 2.58e+01 2ac2A 309 2.59e+01 1qtnA 164 2.62e+01 1pauA c.17.1.1 30999 1zyoA 191 2.65e+01 2bleA 367 2.66e+01 1wrdA 103 2.68e+01 1puiA 210 2.73e+01 c.37.1.8 88292 1ckmA 330 2.76e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 2b5eA 504 2.79e+01 1ev7A 317 2.82e+01 1ev7B c.52.1.9 33315 1wyzA 242 2.82e+01 1xwoA 465 2.83e+01 1jjyA 636 2.85e+01 1jjyA 1ofgA 381 2.89e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1vid 221 2.92e+01 1vid c.66.1.1 34178 1rljA 139 2.98e+01 c.23.5.7 104983 1jhsA 188 2.99e+01 d.107.1.1 84172 1h7eA 245 3.00e+01 c.68.1.13 60717 2g39A 497 3.05e+01 1f4lA 551 3.07e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1su8A 636 3.07e+01 e.26.1.2 98999 1wzlA 585 3.08e+01 2gx9A 129 3.09e+01 1han 297 3.14e+01 1han d.32.1.3,d.32.1.3 38506,38507 1d1gA 168 3.16e+01 1d1gA c.71.1.1 34889 1shdA 107 3.23e+01 1fmk d.93.1.1 40440 1vdnA 162 3.25e+01 1amy 403 3.31e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1hxrA 115 3.38e+01 1fwqA b.88.1.1 28392 1qnxA 209 3.40e+01 1qnxA d.111.1.1 40914 2bznA 351 3.41e+01 1nrfA 262 3.45e+01 e.3.1.1 92086 1hy0A 466 3.47e+01 1auwA a.127.1.1 61392 1ga0A 364 3.54e+01 1gceA e.3.1.1 60410 2g19A 244 3.54e+01 1f2aA 215 3.56e+01 1cs8A d.3.1.1 37040 1r2zA 274 3.58e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1i0aA 466 3.58e+01 1auwA a.127.1.1 61479 1dozA 309 3.61e+01 1ak1 c.92.1.1 35592 1rypH 205 3.62e+01 d.153.1.4 41876 1f1xA 322 3.64e+01 d.32.1.3,d.32.1.3 83208,83209 1jyeA 349 3.69e+01 c.93.1.1 67455 1xiuA 230 3.70e+01 1b7yA 350 3.74e+01 1pysA d.104.1.1 40776 1ox6A 555 3.76e+01 c.1.2.1,c.23.16.1 87505,87506 1zh5A 195 3.78e+01 1yw5A 177 3.86e+01 1nd4A 264 3.94e+01 d.144.1.6 91815 1w7bA 339 3.98e+01 1xwfA 431 4.06e+01 1ru4A 400 4.07e+01 b.80.1.9 97836 1rcf 169 4.08e+01 1rcf c.23.5.1 31170 1opr 213 4.25e+01 1opr c.61.1.1 34091 1gsoA 431 4.26e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1j8fA 323 4.29e+01 1j8fA c.31.1.5 62738 3rubS 123 4.29e+01 1rboC d.73.1.1 39616 1vr6A 350 4.29e+01 1ls1A 295 4.31e+01 a.24.13.1,c.37.1.10 78170,78171 1xzoA 174 4.33e+01 1wwrA 171 4.34e+01 1npk 154 4.37e+01 1npk d.58.6.1 39099 1gnxA 479 4.42e+01 c.1.8.4 76241 1iab 200 4.46e+01 1iae d.92.1.8 40312 1zbpA 273 4.53e+01 1iae 200 4.54e+01 1iae d.92.1.8 40311 1ht6A 405 4.59e+01 b.71.1.1,c.1.8.1 83629,83630 2ac4A 309 4.60e+01 1y21A 282 4.60e+01 2b8tA 223 4.60e+01 1o2dA 371 4.62e+01 e.22.1.2 86591 1zzmA 259 4.63e+01 1p4kA 295 4.64e+01 d.153.1.5 87772 1zmbA 290 4.69e+01 2bdrA 175 4.71e+01 1gnuA 117 4.76e+01 d.15.1.3 65403 1ka1A 357 4.79e+01 e.7.1.1 68369 2hrvA 142 4.90e+01 2hrvA b.47.1.4 26429 2irfG 113 4.90e+01 2irfG a.4.5.23 16185 1iujA 106 4.93e+01 d.58.4.5 90701 1wu4A 396 4.96e+01 2ftxA 90 4.96e+01 2b8eA 273 5.01e+01 1avaA 403 5.02e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1h6dA 433 5.02e+01 c.2.1.3,d.81.1.5 65656,65657 1w8iA 156 5.03e+01 1hdoA 206 5.03e+01 1he2A c.2.1.2 60965 1j6rA 214 5.05e+01 d.173.1.2 71598 2b0tA 738 5.05e+01 1fiy 883 5.08e+01 1fiy c.1.12.3 29307 1y3nA 490 5.11e+01 1lcyA 325 5.12e+01 b.36.1.4,b.47.1.1 73834,73835 1gxyA 226 5.14e+01 d.166.1.3 76380 1ohpA 125 5.21e+01 1hkkA 364 5.28e+01 c.1.8.5,d.26.3.1 90634,90635 1p80A 753 5.34e+01 c.23.16.3,e.5.1.1 94337,94338 1e79D 482 5.36e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1dhpA 292 5.40e+01 1dhpA c.1.10.1 29097 2a6lA 292 5.41e+01 1oboA 169 5.44e+01 c.23.5.1 86776 1s2oA 244 5.46e+01 1lfkA 398 5.48e+01 a.104.1.1 77926 1bif 469 5.48e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1tjoA 182 5.48e+01 1nxuA 333 5.50e+01 c.122.1.1 86389 2c2aA 258 5.53e+01 1sn4A 64 5.57e+01 1aho g.3.7.1 44136 2cxaA 256 5.60e+01 1jkmB 361 5.61e+01 1jkmA c.69.1.2 34634 1adoA 363 5.67e+01 1fbaA c.1.10.1 29124 1jqnA 883 5.70e+01 c.1.12.3 77159 2tbs 222 5.72e+01 5ptp b.47.1.2 26009 1i0rA 169 5.75e+01 1i0rA b.45.1.2 61489 1l3iA 192 5.75e+01 c.66.1.22 77676 1lh0A 213 5.76e+01 c.61.1.1 73896 2avxA 171 5.78e+01 1vlrA 350 5.79e+01 d.13.1.3,d.246.1.1 108860,108861 1befA 181 5.79e+01 1befA b.47.1.3 26419 2fomB 185 5.85e+01 1wb0A 445 5.86e+01 1zaiA 363 5.86e+01 1rgzA 363 5.90e+01 e.3.1.1 97457 1stzA 338 5.94e+01 a.4.5.51,d.110.2.3 106009,106010 2fe5A 94 5.97e+01 1rzmA 338 5.98e+01 c.1.10.4 105137 1s4iA 175 6.00e+01 1ornA 226 6.03e+01 a.96.1.1 87342 2as9A 210 6.08e+01 1v6fA 151 6.15e+01 d.109.1.2 108395 1rfmA 344 6.17e+01 c.122.1.1 97385 1si6X 282 6.19e+01 1pvyA 227 6.21e+01 d.115.1.2 95195 1yeyA 444 6.29e+01 1otjA 283 6.40e+01 b.82.2.5 93517 1wqaA 455 6.41e+01 1u3nA 162 6.58e+01 1f1uA 323 6.65e+01 d.32.1.3,d.32.1.3 83200,83201 1y0bA 197 6.72e+01 2basA 431 6.74e+01 1qo7A 394 6.75e+01 1qo7A c.69.1.11 34697 1yxcA 292 6.77e+01 1h8mA 140 6.78e+01 1h8mA d.110.4.1 60782 1j2zA 270 6.79e+01 b.81.1.1 90805 1jsmA 325 6.80e+01 b.19.1.2 63264 1s14A 194 6.83e+01 d.122.1.2 98329 1sotA 320 6.86e+01 b.36.1.4,b.47.1.1 105852,105853 1i5pA 633 6.92e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1idsA 207 6.93e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1zbqA 327 6.95e+01 1vr3A 191 6.96e+01 1k2xB 143 6.96e+01 2d0iA 333 6.98e+01 1r6xA 395 6.99e+01 b.122.1.3,c.26.1.5 97167,97168 1yfsA 465 6.99e+01 1xmrA 243 7.08e+01 1cf9A 753 7.10e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1ygmA 118 7.10e+01 1v84A 253 7.11e+01 c.68.1.7 108419 1ekgA 127 7.13e+01 1dlxA d.82.2.1 40021 1mgpA 313 7.13e+01 c.119.1.1 79098 1f89A 291 7.16e+01 d.160.1.1 64988 1jdpA 441 7.29e+01 c.93.1.1 62906 1k8qA 377 7.29e+01 c.69.1.6 72177 1i7qB 193 7.31e+01 1qdlB c.23.16.1 61902 1vazA 88 7.33e+01 d.245.1.1 100554 1eo6A 117 7.35e+01 1eo6A d.15.1.3 37609 1ddlA 188 7.35e+01 1auyA b.121.4.6 23317 2dh4A 340 7.35e+01 2arhA 203 7.40e+01 1kafA 108 7.42e+01 d.199.1.1 68372 1gl4B 98 7.43e+01 b.1.1.4 65288 2avnA 260 7.45e+01 1zk7A 467 7.48e+01 1cqkA 101 7.50e+01 1cqkA b.1.1.2 21547 1ydnA 295 7.51e+01 2ca6A 386 7.64e+01 1mojA 182 7.71e+01 a.25.1.1 91367 1w2xA 758 7.71e+01 c.14.1.4,c.14.1.4 109134,109135 2b81A 323 7.75e+01 1o20A 427 7.76e+01 c.82.1.1 86556 1uyrA 737 7.76e+01 c.14.1.4,c.14.1.4 100188,100189 1xfjA 261 7.76e+01 d.194.1.2 109585 1k7wA 468 7.84e+01 a.127.1.1 72130 1mo7A 213 7.86e+01 d.220.1.1 85028 2a6nA 292 7.87e+01 1ohuA 175 7.88e+01 f.1.4.1 93029 1hj8A 222 7.90e+01 b.47.1.2 65844 1iy8A 267 7.91e+01 c.2.1.2 83774 1a8l 226 7.93e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1yrgA 385 7.97e+01 1yrgA c.10.1.2 30854 1nekA 588 8.02e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1o0sA 605 8.13e+01 c.2.1.7,c.58.1.3 86540,86541 1kzfA 230 8.18e+01 d.108.1.3 73354 1x54A 434 8.21e+01 1riqA 465 8.21e+01 a.203.1.1,d.104.1.1 97516,97517 1o5oA 221 8.26e+01 c.61.1.1 92509 2d29A 387 8.26e+01 2b18A 164 8.40e+01 1z3eA 132 8.41e+01 1a7tA 232 8.43e+01 1a7tA d.157.1.1 42041 2g7uA 257 8.52e+01 1ka9H 200 8.57e+01 c.23.16.1 77308 1qgxA 357 8.58e+01 1qgxA e.7.1.1 42973 1itwA 741 8.60e+01 c.77.1.2 76793 3psg 370 8.62e+01 1smrA b.50.1.2 26841 1h8eD 482 8.63e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1apyA 162 8.66e+01 1apyA d.153.1.5 42004 1g4mA 393 8.75e+01 b.1.18.11,b.1.18.11 65143,65144 1pu1A 94 8.77e+01 d.266.1.1 104307 1snnA 227 8.79e+01 d.115.1.2 105821 1amf 233 8.80e+01 1wod c.94.1.1 35833 1l1qA 186 8.83e+01 c.61.1.1 77653 1tjvA 474 8.86e+01 a.127.1.1 107054 2ck3D 482 8.91e+01 1qdeA 224 8.93e+01 1qvaA c.37.1.19 32410