# 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 1bg2 325 8.81e-63 1bg2 c.37.1.9 32189 1i6iA 366 1.96e-57 1bg2 c.37.1.9 61844 1q0bA 367 6.78e-57 c.37.1.9 95502 1x88A 359 1.28e-56 1vfvA 366 1.98e-55 c.37.1.9 108592 1f9vA 347 6.36e-53 1bg2 c.37.1.9 59745 1ry6A 360 8.94e-50 c.37.1.9 98090 2kinA 238 5.94e-42 1bg2 c.37.1.9 32190 2kinB 100 6.36e-10 3kinB 2akaB 299 8.86e-03 1d2mA 665 1.61e-02 1d2mA c.37.1.19,c.37.1.19 32417,32418 1odfA 290 1.04e-01 c.37.1.6 92782 1c4oA 664 1.91e-01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1z47A 355 1.97e-01 1qf9A 194 2.20e-01 1zin c.37.1.1 31848 5ukdA 194 2.27e-01 1zin c.37.1.1 31851 1g6oA 330 2.87e-01 1g6oA c.37.1.11 32430 1f5nA 592 4.16e-01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1ooyA 481 6.46e-01 c.124.1.3,c.124.1.2 93388,93389 1j8mF 297 6.52e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1ihuA 589 6.74e-01 c.37.1.10,c.37.1.10 62394,62395 1htjF 210 7.83e-01 1htjF a.91.1.1 61254 1jx2B 315 7.96e-01 c.37.1.8 67404 2fx0A 201 8.69e-01 1g291 372 9.13e-01 1g291 2cdnA 201 1.16e+00 1p3jA 217 1.23e+00 c.37.1.1,g.41.2.1 94022,94023 1wdtA 665 1.27e+00 1ih8A 271 1.43e+00 2nsyA c.26.2.1 62377 1f60A 458 1.46e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1oywA 523 1.61e+00 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 2fnaA 357 1.67e+00 2ng1 293 1.74e+00 1ng1 a.24.13.1,c.37.1.10 16962,32273 1dq3A 454 1.86e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1dhs 344 1.99e+00 1dhs c.31.1.1 31727 1xw4X 110 2.18e+00 1ls1A 295 2.39e+00 a.24.13.1,c.37.1.10 78170,78171 1gwiA 411 2.54e+00 a.104.1.1 76364 1xwiA 322 2.62e+00 1e9rA 437 2.79e+00 c.37.1.11 64827 1xw8A 252 2.98e+00 1mvwA 840 3.04e+00 i.15.1.1 79523 1yrbA 262 3.18e+00 1eu1A 780 3.19e+00 1dmr b.52.2.2,c.81.1.1 26903,35311 1i9gA 280 3.20e+00 c.66.1.13 62090 1z83A 196 3.35e+00 1kqpA 271 3.37e+00 c.26.2.1 72883 1dekA 241 3.53e+00 1dekA c.37.1.1 31842 1ji0A 240 3.68e+00 c.37.1.12 71665 1hf8A 289 4.24e+00 1hg5A a.7.8.2,a.118.9.3 90354,90355 1bif 469 4.27e+00 1bif c.37.1.7,c.60.1.4 31961,34003 2ahuA 531 4.28e+00 1qhfA 240 4.43e+00 1qhfA c.60.1.1 33960 1pfkA 320 4.49e+00 3pfk c.89.1.1 35575 1xd8A 289 4.66e+00 1h65A 270 4.80e+00 c.37.1.8 65640 2ax4A 198 4.84e+00 1tq4A 413 4.95e+00 c.37.1.8 107201 2a5yB 549 5.08e+00 1kl7A 514 5.36e+00 c.79.1.1 72678 2ak3A 226 6.05e+00 1zin c.37.1.1,g.41.2.1 31892,45193 1xkwA 665 6.22e+00 1u69A 163 6.91e+00 d.32.1.7 107699 1lwjA 441 6.99e+00 b.71.1.1,c.1.8.1 74303,74304 1ofuA 320 7.55e+00 c.32.1.1,d.79.2.1 86972,86973 1u94A 356 7.72e+00 c.37.1.11,d.48.1.1 107743,107744 1yzsA 121 7.82e+00 1d2nA 272 8.16e+00 1d2nA c.37.1.20 32428 1np3A 338 8.83e+00 a.100.1.2,c.2.1.6 85946,85947 1esmA 316 8.85e+00 1esmA c.37.1.6 31953 1nsf 273 9.22e+00 1d2nA c.37.1.20 32429 1rqlA 267 9.27e+00 c.108.1.3 97750 1oxsC 353 9.37e+00 b.40.6.3,c.37.1.12 87519,87520 2fpmA 322 1.04e+01 1q5dA 419 1.10e+01 a.104.1.1 95891 1faeA 629 1.11e+01 1fce a.102.1.2 18837 1z5vA 474 1.14e+01 1u9iA 519 1.16e+01 1zip 217 1.16e+01 1zin c.37.1.1,g.41.2.1 31916,45179 2fji1 399 1.17e+01 1oxxK 353 1.17e+01 b.40.6.3,c.37.1.12 93715,93716 1zin 217 1.19e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1yuwA 554 1.20e+01 1pjr 724 1.21e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 2bd0A 244 1.21e+01 1g9gA 629 1.22e+01 a.102.1.2 83279 1v5wA 343 1.24e+01 c.37.1.11 108387 1x6vA 630 1.25e+01 1pzgA 331 1.26e+01 c.2.1.5,d.162.1.1 95425,95426 1rlzA 369 1.28e+01 c.31.1.1 104989 1xw3A 110 1.28e+01 2cmd 312 1.29e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1b43A 340 1.31e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 3tmkA 216 1.35e+01 3tmkA c.37.1.1 31920 1h2eA 207 1.37e+01 c.60.1.1 70857 1g8pA 350 1.41e+01 1g8pA c.37.1.20 60376 2pia 321 1.42e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2pfkA 320 1.48e+01 3pfk c.89.1.1 35577 1qdeA 224 1.54e+01 1qvaA c.37.1.19 32410 1ve1A 304 1.60e+01 1ukz 203 1.68e+01 1zin c.37.1.1 31840 1vmaA 306 1.68e+01 a.24.13.1,c.37.1.10 108887,108888 1qwtA 255 1.70e+01 b.26.1.3 96501 1z63A 500 1.85e+01 2reb 352 1.86e+01 2reb c.37.1.11,d.48.1.1 32282,38767 2ghpA 292 1.87e+01 1nqeA 594 1.93e+01 f.4.3.3 86027 1cp2A 269 1.99e+01 1cp2A c.37.1.10 32269 1z6aA 500 1.99e+01 1oe9A 795 2.01e+01 b.34.3.1,c.37.1.9 92792,92793 1hl2A 297 2.04e+01 c.1.10.1 83581 2aq4A 434 2.13e+01 1vplA 256 2.13e+01 1g7sA 594 2.19e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1swvA 267 2.20e+01 1l1lA 739 2.21e+01 c.7.1.4 73470 1fnnA 389 2.23e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1w36D 608 2.27e+01 1ld8A 382 2.30e+01 a.118.6.1 73838 1cipA 353 2.34e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1cs8A 316 2.36e+01 1cs8A d.3.1.1 37065 1gv3A 248 2.39e+01 a.2.11.1,d.44.1.1 70585,70586 1xmiA 291 2.42e+01 1tn6A 382 2.47e+01 1rdfA 267 2.50e+01 c.108.1.3 104884 1wf3A 301 2.53e+01 1nekA 588 2.56e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1w9iA 770 2.57e+01 1ivnA 190 2.58e+01 c.23.10.5 83719 1idpA 172 2.59e+01 d.17.4.1 83685 2bkaA 242 2.60e+01 1d5tA 433 2.62e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1sq5A 308 2.63e+01 c.37.1.6 105882 2bdeA 470 2.69e+01 2aiqA 231 2.74e+01 1t4gA 322 2.74e+01 a.60.4.1,c.37.1.11 106418,106419 1viaA 175 2.76e+01 c.37.1.2 100754 1gvnB 287 2.76e+01 c.37.1.21 76354 1nrjB 218 2.78e+01 c.37.1.8 86125 1u8xX 472 2.86e+01 c.2.1.5,d.162.1.2 107741,107742 1gnd 447 2.88e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1fmcA 255 2.90e+01 1cydA c.2.1.2 29856 1svsA 353 2.90e+01 c.37.1.8 106051 1ubeA 349 2.91e+01 c.37.1.11,d.48.1.1 88412,88413 2foyA 260 2.94e+01 1g6hA 257 2.97e+01 1gajA c.37.1.12 60318 1wer 334 3.00e+01 1wer a.116.1.2 19108 1q0uA 219 3.01e+01 c.37.1.19 95512 1dl5A 317 3.06e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1w36B 1180 3.08e+01 1vcaA 202 3.09e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1m33A 258 3.22e+01 c.69.1.26 78514 1dljA 402 3.22e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1ulyA 192 3.26e+01 2a1iA 146 3.29e+01 1sxjE 354 3.30e+01 a.80.1.1,c.37.1.20 106089,106090 2bbsA 290 3.33e+01 1gypA 358 3.37e+01 1dssG c.2.1.3,d.81.1.1 30004,39919 1fjhA 257 3.38e+01 1fjhB c.2.1.2 29870 1g3qA 237 3.45e+01 1hyqA c.37.1.10 60237 1oxwA 373 3.51e+01 c.19.1.3 87539 2b8wA 328 3.57e+01 1mj5A 302 3.58e+01 c.69.1.8 91285 1zd8A 227 3.60e+01 1vjzA 341 3.63e+01 c.1.8.3 100838 1w4tA 299 3.65e+01 1uptC 170 3.82e+01 c.37.1.8 99769 1zu4A 320 3.84e+01 2gdjA 264 3.85e+01 2azeA 155 3.88e+01 2a9uA 144 3.89e+01 1xfsA 178 3.94e+01 d.129.3.5 109589 1ny6A 267 3.94e+01 c.37.1.20 92321 2ez9A 603 3.97e+01 1xrjA 261 3.97e+01 1rj9A 304 3.99e+01 a.24.13.1,c.37.1.10 97553,97554 2fqxA 318 4.10e+01 1cv2A 296 4.13e+01 1bn6A c.69.1.8 34680 1zoyA 622 4.13e+01 1d8dA 377 4.19e+01 1ft1A a.118.6.1 19185 1tzfA 259 4.20e+01 c.68.1.13 107476 1nal1 297 4.34e+01 1nal3 1ko7A 314 4.40e+01 c.98.2.1,c.91.1.2 72797,72798 2c1lA 358 4.40e+01 1w7lA 422 4.40e+01 c.67.1.1 109226 1nijA 318 4.45e+01 c.37.1.10,d.237.1.1 85741,85742 1bdb 277 4.50e+01 1bdb c.2.1.2 29874 1lldA 319 4.55e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1fo4A 1332 4.69e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1v5eA 590 4.70e+01 1efvA 315 4.78e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 1gadO 330 4.83e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1m7gA 211 4.85e+01 c.37.1.4 78724 1vg8A 207 4.86e+01 c.37.1.8 108606 1uj2A 252 4.92e+01 c.37.1.6 99452 1omhA 293 4.93e+01 d.89.1.5 93348 1s3eA 520 4.94e+01 c.3.1.2,d.16.1.5 98426,98427 2a65A 519 4.95e+01 1cfzA 162 4.96e+01 1cfzA c.56.1.1 33754 1x0vA 354 4.97e+01 1mkp 144 5.00e+01 1vhrA c.45.1.1 32654 1vgoA 253 5.01e+01 1jffA 451 5.07e+01 c.32.1.1,d.79.2.1 62932,62933 1xq6A 253 5.10e+01 1l7aA 318 5.14e+01 c.69.1.25 77772 1cjcA 460 5.28e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1z0wA 207 5.30e+01 1std 172 5.35e+01 3stdA d.17.4.1 38089 1hdcA 253 5.40e+01 1e6wA c.2.1.2 29862 1ys4A 354 5.45e+01 1yqtA 538 5.48e+01 1poxA 585 5.50e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 1hcb 260 5.55e+01 2cba b.74.1.1 27814 1ezfA 340 5.56e+01 1ezfA a.128.1.2 19440 1k0dA 260 5.59e+01 a.45.1.1,c.47.1.5 67930,67931 1w6uA 302 5.59e+01 1nxiA 132 5.65e+01 d.58.47.1 86381 1qmgA 524 5.66e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 2bycA 137 5.67e+01 1qnrA 344 5.68e+01 1qnoA c.1.8.3 28834 1o6dA 163 5.68e+01 c.116.1.3 92567 1tvkA 440 5.71e+01 c.32.1.1,d.79.2.1 107362,107363 2fbwA 621 5.73e+01 1xnfA 275 5.73e+01 1vflA 356 5.75e+01 1jfbA 404 5.75e+01 a.104.1.1 66624 1b7yB 785 5.84e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1kit 757 5.84e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1yr0A 175 5.87e+01 1e4yA 214 5.90e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1gpjA 404 5.93e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1ojaA 520 5.93e+01 c.3.1.2,d.16.1.5 93096,93097 1ycdA 243 5.94e+01 1dmgA 225 5.94e+01 1dmgA c.22.1.1 31036 1ok7A 366 5.96e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1ido 192 5.96e+01 1ido c.62.1.1 34139 2gjsA 176 6.05e+01 1yf2A 425 6.08e+01 1hm9A 468 6.14e+01 b.81.1.4,c.68.1.5 65866,65867 1dssG 333 6.20e+01 1dssG c.2.1.3,d.81.1.1 30022,39937 1b0uA 262 6.21e+01 1b0uA c.37.1.12 32370 1orrA 347 6.28e+01 c.2.1.2 93460 1v97A 1332 6.30e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1l2tA 235 6.35e+01 c.37.1.12 73514 1vhtA 218 6.37e+01 c.37.1.1 100700 2dkaA 544 6.39e+01 1usyA 275 6.43e+01 1zclA 180 6.45e+01 2comA 124 6.47e+01 1qhlA 227 6.53e+01 1qhlA c.37.1.12 32382 1ee4A 423 6.53e+01 1ee4A a.118.1.1 19128 1yxmA 303 6.53e+01 1g97A 459 6.60e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1tph1 247 6.64e+01 1amk 1t5yA 190 6.70e+01 b.122.1.1,d.17.6.3 106495,106496 1ky3A 182 6.93e+01 c.37.1.8 73193 1w7jA 795 7.02e+01 1k4iA 233 7.03e+01 d.115.1.2 72056 1r9lA 309 7.19e+01 c.94.1.1 97262 1thtA 305 7.25e+01 1thtA c.69.1.13 34711 1aerA 205 7.25e+01 1aerA d.166.1.1 42249 1obbA 480 7.26e+01 c.2.1.5,d.162.1.2 86760,86761 1n3bA 216 7.26e+01 c.37.1.1 79959 2bsjA 133 7.29e+01 1fmtA 314 7.30e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1w5fA 353 7.38e+01 2azjA 289 7.41e+01 2pvaA 345 7.43e+01 3pvaA d.153.1.3 41850 1x13A 401 7.53e+01 1yiyA 429 7.57e+01 1s1qA 145 7.64e+01 d.20.1.2 98351 1rq2A 382 7.87e+01 c.32.1.1,d.79.2.1 105048,105049 1vljA 407 7.92e+01 e.22.1.2 108832 1mmiA 366 7.93e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1dg9A 157 7.99e+01 1dg9A c.44.1.1 32637 1w1iE 357 8.01e+01 c.1.9.1 109051 1lv7A 257 8.06e+01 c.37.1.20 78232 1ujnA 348 8.13e+01 e.22.1.1 99460 1f24A 402 8.19e+01 1rom a.104.1.1 18953 2bs3A 656 8.21e+01 1qydA 313 8.24e+01 c.2.1.2 96583 1qlaA 656 8.26e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1yizA 429 8.27e+01 1xhlA 297 8.28e+01 c.2.1.2 109591 1h80A 464 8.30e+01 b.80.1.8 65714 1tueA 212 8.33e+01 c.37.1.20 107323 1uptA 171 8.37e+01 c.37.1.8 99767 1vhwA 253 8.45e+01 c.56.2.1 100706 1uz1A 468 8.46e+01 1ed1A 135 8.46e+01 1hiwA a.61.1.1 18130 1qfjA 232 8.66e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 2g2cA 167 8.74e+01 1fts 295 8.76e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 2gfoA 396 8.82e+01 1pt7A 437 8.94e+01 c.123.1.1 95093 1p4xA 250 8.94e+01 a.4.5.28,a.4.5.28 87784,87785 1qorA 327 8.99e+01 1qorA b.35.1.2,c.2.1.1 24766,29782