# 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 1vin 268 2.08e-35 1vin a.74.1.1,a.74.1.1 18354,18355 2cchB 260 1.23e-34 1w98B 283 5.53e-28 1kxu 333 7.14e-25 1jkw a.74.1.1,a.74.1.1 18358,18359 1f5qB 252 1.71e-17 1f5qB a.74.1.1,a.74.1.1 18362,18363 1aisB 200 1.96e-17 1aisB a.74.1.2,a.74.1.2 18384,18385 1ymiA 334 1.79e-01 1r59O 505 5.64e-01 1iomA 377 5.67e-01 a.103.1.1 83698 1wz8A 264 7.14e-01 1ww8A 439 1.13e+00 1tbmA 326 1.14e+00 a.211.1.2 106744 1opjA 293 1.19e+00 d.144.1.7 87230 1b43A 340 1.40e+00 1a76 a.60.7.1,c.120.1.2 18092,33362 1lqaA 346 1.69e+00 c.1.7.1 84674 1guxB 152 1.72e+00 1guxB a.74.1.3 18389 1unlD 208 2.04e+00 1nu7D 282 2.26e+00 a.8.6.1,a.8.6.1 92191,92192 1evfA 264 2.63e+00 1bkpA d.117.1.1 40932 1c3pA 375 2.80e+00 1c3pA c.42.1.2 32606 2awiA 317 3.00e+00 1hcl 298 3.19e+00 1hcl d.144.1.7 41593 1yakA 263 3.31e+00 1z7dA 433 3.35e+00 1xx4A 261 3.35e+00 1gz8A 299 3.46e+00 d.144.1.7 83405 1zz1A 369 4.27e+00 2f5uA 447 4.30e+00 1vkwA 218 4.61e+00 d.90.1.2 108695 1qqeA 292 4.71e+00 1qqeA a.118.8.1 19210 1ka2A 499 4.78e+00 d.92.1.5 77305 1r29A 127 5.01e+00 d.42.1.1 96856 2g8mA 264 5.05e+00 1m2rA 327 5.07e+00 d.144.1.7 84760 1ynpA 317 5.18e+00 1ae7 119 5.21e+00 1poa a.133.1.2 19553 1qqqA 264 5.21e+00 1bkpA d.117.1.1 40931 1xewX 182 5.32e+00 1czaN 917 5.36e+00 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1h4lD 147 5.47e+00 a.74.1.1 70873 1jpaA 312 5.53e+00 d.144.1.7 67011 1om1A 332 5.66e+00 d.144.1.7 93347 2ax4A 198 5.68e+00 2aheA 267 5.72e+00 1k3pA 426 6.12e+00 a.103.1.1 77237 1ve1A 304 6.45e+00 1uyrA 737 7.09e+00 c.14.1.4,c.14.1.4 100188,100189 1hynP 379 7.13e+00 1hynP d.112.1.2 61408 1y13A 181 7.54e+00 1z7wA 322 8.11e+00 1w2xA 758 8.49e+00 c.14.1.4,c.14.1.4 109134,109135 2be4A 272 8.66e+00 1jixA 351 8.70e+00 1c3jA c.87.1.1 63081 1tj9A 121 8.76e+00 a.133.1.2 107015 1ujnA 348 9.00e+00 e.22.1.1 99460 1r53A 382 9.02e+00 d.258.1.1 97063 1tk4A 121 9.07e+00 a.133.1.2 107073 1c3jA 351 9.11e+00 1c3jA c.87.1.1 35459 1owcA 427 9.12e+00 a.103.1.1 104039 1pjhA 280 9.23e+00 c.14.1.3 94761 1u2xA 474 9.38e+00 c.72.1.3 107622 1wmaA 276 9.53e+00 1xfuA 747 9.59e+00 1z7yA 322 9.81e+00 1a59 378 9.82e+00 1aj8A a.103.1.1 18902 2fwuA 157 1.01e+01 1ysjA 404 1.01e+01 1u7lA 392 1.03e+01 1ibrB 462 1.08e+01 1qgrA a.118.1.1 19120 1rxwA 336 1.11e+01 a.60.7.1,c.120.1.2 98059,98060 1sqzA 121 1.13e+01 a.133.1.2 98975 1j1bA 420 1.16e+01 d.144.1.7 90758 2bdwA 362 1.22e+01 1hnuA 280 1.24e+01 1hnoA c.14.1.3 61096 2c3nA 247 1.27e+01 1dbhA 354 1.28e+01 1awe a.87.1.1,b.55.1.1 18514,26967 2g58A 121 1.29e+01 1srqA 341 1.34e+01 e.55.1.1 105967 2g8oA 264 1.36e+01 1h1wA 289 1.38e+01 d.144.1.7 83460 1t3lA 337 1.40e+01 b.34.2.1,c.37.1.1 106358,106359 1blxA 326 1.43e+01 1hcl d.144.1.7 41596 2gx9A 129 1.47e+01 1zwpA 121 1.51e+01 1wa5C 960 1.57e+01 1vdwA 254 1.60e+01 e.7.1.1 100569 2bkkA 264 1.64e+01 1bw0A 416 1.68e+01 1bw0A c.67.1.1 34385 2dfkA 402 1.75e+01 1qqfA 277 1.78e+01 1c3d a.102.4.4 18875 1v9nA 360 1.79e+01 2b9hA 353 1.82e+01 4pah 308 1.82e+01 4pah d.178.1.1 42576 1qxoA 388 1.82e+01 d.258.1.1 96539 1xbbA 291 1.83e+01 1tzjA 338 1.85e+01 1bouB 302 1.85e+01 1bouB c.56.6.1 33859 2abwA 227 1.86e+01 1j1vA 94 1.90e+01 a.4.12.2 83981 1xfxA 777 1.90e+01 2a1dD 329 1.95e+01 1w9gA 104 2.04e+01 2g8yA 385 2.05e+01 1ufbA 127 2.05e+01 a.24.16.3 99331 1t6sA 162 2.11e+01 1wz7A 111 2.11e+01 2a14A 263 2.14e+01 1um0A 365 2.14e+01 d.258.1.1 107942 1j8uA 325 2.19e+01 d.178.1.1 71611 2fflA 756 2.23e+01 1aj8A 371 2.29e+01 1aj8A a.103.1.1 18900 1r31A 428 2.34e+01 d.58.20.1,d.179.1.1 96897,96898 1kr4A 125 2.36e+01 d.58.5.2 72889 2bmfA 451 2.39e+01 1sg4A 260 2.41e+01 5eau 548 2.44e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1v3rA 116 2.49e+01 2bl0B 145 2.56e+01 1gpeA 587 2.59e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 2ceyA 306 2.60e+01 2feaA 236 2.63e+01 1oz9A 150 2.64e+01 d.92.1.15 93808 1paqA 189 2.65e+01 a.118.1.14 94413 1h6zA 913 2.66e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1e79A 510 2.68e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1g4iA 123 2.71e+01 1poa a.133.1.2 60241 1wiwA 290 2.77e+01 1fgkA 310 2.77e+01 1fgkA d.144.1.7 41693 2g84A 197 2.81e+01 1vqwA 457 2.82e+01 1wbsA 360 2.89e+01 1s6bA 119 2.91e+01 a.133.1.2 98592 1tkiA 321 3.05e+01 1tkiA d.144.1.7 41638 1fvrA 327 3.07e+01 d.144.1.7 60047 1t46A 313 3.11e+01 d.144.1.7 106397 1d8dA 377 3.25e+01 1ft1A a.118.6.1 19185 1qo7A 394 3.39e+01 1qo7A c.69.1.11 34697 1vljA 407 3.41e+01 e.22.1.2 108832 1uu3A 310 3.42e+01 d.144.1.7 99999 2b33A 140 3.44e+01 1qgrA 876 3.44e+01 1qgrA a.118.1.1 19119 1e8yA 966 3.51e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1ki1B 352 3.54e+01 a.87.1.1,b.55.1.1 72497,72498 1h8eA 510 3.56e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1t3qA 168 3.58e+01 a.56.1.1,d.15.4.2 106367,106368 2b6nA 278 3.60e+01 1p5jA 372 3.63e+01 c.79.1.1 104067 1zzlA 351 3.70e+01 1ig8A 486 3.71e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1na3A 91 3.78e+01 k.38.1.1 85481 2gfsA 372 3.82e+01 1ywrA 360 3.86e+01 1wdcC 156 3.96e+01 1wdcC a.39.1.5 17317 1zuwA 272 3.97e+01 1v2zA 111 3.98e+01 a.186.1.1 108300 1ok7A 366 3.99e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1r3cA 366 4.11e+01 d.144.1.7 96906 1wbpA 397 4.11e+01 1sesA 421 4.15e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1a76 326 4.20e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1lwdA 413 4.22e+01 c.77.1.1 78265 1dl2A 511 4.22e+01 1dl2A a.102.2.1 18844 1jd1A 129 4.27e+01 1qu9A d.79.1.1 62890 1q32A 544 4.32e+01 d.136.1.3,d.136.1.3 104507,104508 1e3mA 800 4.41e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1v4sA 455 4.50e+01 c.55.1.3,c.55.1.3 100309,100310 1fo8A 343 4.58e+01 1foaA c.68.1.10 59927 1eyhA 144 4.64e+01 1eduA a.118.9.1 19214 1bu6O 501 4.65e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1r8sE 203 4.69e+01 a.118.3.1 97248 1wyuB 474 4.77e+01 1us5A 314 4.81e+01 c.94.1.1 99856 1g57A 217 4.85e+01 1g57A d.115.1.2 60253 1pwhA 327 4.91e+01 c.79.1.1 95224 1poa 118 4.92e+01 1poa a.133.1.2 19514 1y7lA 316 5.04e+01 1i39A 225 5.06e+01 1ekeA c.55.3.1 61585 1yxhA 126 5.08e+01 1qwkA 317 5.17e+01 c.1.7.1 96482 2b7aA 293 5.18e+01 1vkdA 338 5.24e+01 b.67.2.4 108644 1ls1A 295 5.27e+01 a.24.13.1,c.37.1.10 78170,78171 1phk 298 5.31e+01 1cdkA d.144.1.7 41635 2ck3A 510 5.40e+01 1gvnB 287 5.45e+01 c.37.1.21 76354 1u46A 291 5.45e+01 d.144.1.7 107656 1yge 839 5.53e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1hrhA 136 5.59e+01 1rthA c.55.3.1 33577 1kdgA 546 5.62e+01 c.3.1.2,d.16.1.1 77337,77338 1or4A 178 5.75e+01 a.1.1.2 93447 1ly1A 181 5.76e+01 c.37.1.1 74334 1miuA 738 5.77e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1c6wA 33 5.78e+01 1c6wA g.3.6.2 44119 1z57A 339 5.82e+01 2ahqA 76 5.91e+01 1tg6A 277 5.93e+01 1wwtA 88 5.96e+01 1zp4A 304 6.02e+01 1r5lA 262 6.06e+01 a.5.3.1,c.13.1.1 97099,97100 2bsjA 133 6.20e+01 2a2pA 129 6.25e+01 1o17A 345 6.32e+01 a.46.2.1,c.27.1.1 80765,80766 2ctc 307 6.45e+01 1aye c.56.5.1 33802 1y75A 118 6.53e+01 1lehA 364 6.57e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1qwtA 255 6.58e+01 b.26.1.3 96501 1kuuA 202 6.60e+01 d.153.2.1 73019 1v7cA 351 6.64e+01 c.79.1.1 100446 1mmiA 366 6.65e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1pme 380 6.65e+01 1hcl d.144.1.7 41653 1k4nA 192 6.80e+01 d.32.1.5 72059 1tn6A 382 6.80e+01 1wb9A 800 6.82e+01 1hn4A 131 6.85e+01 a.133.1.2 65893 1k8tA 510 6.96e+01 e.41.1.1 68316 1x42A 232 7.04e+01 1l5xA 280 7.10e+01 c.106.1.1 77718 1b77A 228 7.13e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1e7uA 961 7.14e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2audA 257 7.15e+01 1w1oA 534 7.18e+01 d.58.32.4,d.145.1.1 109071,109072 1f37A 110 7.32e+01 1f37A c.47.1.11 33088 1yvrA 538 7.33e+01 1f28A 297 7.41e+01 1bkpA d.117.1.1 59608 1ypvA 313 7.43e+01 1nlnA 204 7.43e+01 d.3.1.7 91962 1xfiA 367 7.47e+01 e.50.1.1 109584 1ede 310 7.48e+01 1b6g c.69.1.8 34662 1vb3A 428 7.51e+01 1r9lA 309 7.57e+01 c.94.1.1 97262 1q16B 512 7.57e+01 d.58.1.5 95548 2a0mA 316 7.69e+01 1vfjA 116 7.80e+01 1ej0A 180 7.85e+01 1ej0A c.66.1.2 34179 1xhvA 257 7.91e+01 c.52.1.19 109597 1m4lA 307 7.97e+01 c.56.5.1 78604 1ae9A 179 7.98e+01 1ae9A d.163.1.1 42153 1kk8B 139 8.07e+01 a.39.1.5 77430 1uby 367 8.08e+01 1uby a.128.1.1 19435 1yh2A 175 8.11e+01 2bryA 497 8.14e+01 1o60A 292 8.15e+01 c.1.10.4 92532 1zrn 232 8.16e+01 1qq5A c.108.1.1 43323 1nhyA 219 8.27e+01 a.45.1.1,c.47.1.5 80520,80521 1h3nA 878 8.33e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1h96A 182 8.37e+01 2fha a.25.1.1 60811 1d8cA 723 8.39e+01 1d8cA c.1.13.1 29325 1y5iB 512 8.39e+01 1ezfA 340 8.40e+01 1ezfA a.128.1.2 19440 1xd3A 230 8.44e+01 2polA 366 8.47e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1dk0A 188 8.63e+01 1b2vA d.35.1.1 38530 1v1rA 400 8.70e+01 c.36.1.11 108272 1s6bB 119 8.73e+01 a.133.1.2 98593 1uq5A 263 8.77e+01 d.165.1.1 99778 1wjtA 103 8.80e+01 1io2A 213 8.83e+01 1ekeA c.55.3.1 62612 1t3qC 288 8.84e+01 d.87.2.1,d.145.1.3 106371,106372 1xn8A 131 8.84e+01 1vpqA 273 8.84e+01 1j0aA 325 8.85e+01 c.79.1.1 83871 1yxlA 119 8.91e+01 2aaxA 275 8.92e+01 1tzlA 622 8.94e+01 1fus 106 8.95e+01 9rnt d.1.1.4 36050 1i37A 260 8.97e+01 1a28A a.123.1.1 61583