# 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 1ipaA 274 7.91e-28 c.116.1.1,d.79.3.3 71254,71255 1x7oA 287 1.31e-27 1v2xA 194 2.37e-22 c.116.1.1 100274 1zjrA 211 1.86e-19 1mxiA 160 6.51e-14 c.116.1.1 79646 2dbqA 334 6.77e-02 1vhyA 257 8.58e-02 b.122.1.2,c.116.1.5 100714,100715 1nxzA 246 1.32e-01 b.122.1.2,c.116.1.5 86391,86392 1zjjA 263 2.65e-01 1o6dA 163 2.76e-01 c.116.1.3 92567 8dfr 189 2.83e-01 1aoeA c.71.1.1 34895 1j8mF 297 3.32e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1h1yA 228 3.78e-01 c.1.2.2 76506 1qwgA 251 4.37e-01 c.1.27.1 96473 1xrtA 467 4.58e-01 1j8yF 297 4.63e-01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1rj9A 304 5.21e-01 a.24.13.1,c.37.1.10 97553,97554 2b8nA 429 5.36e-01 1k3rA 268 6.03e-01 b.40.4.10,c.116.1.2 72018,72019 1vk3A 615 6.57e-01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1zxxA 319 9.30e-01 2anuA 255 1.04e+00 1x3lA 440 1.08e+00 1o0uA 429 1.17e+00 c.118.1.1 80743 1o5zA 442 1.26e+00 c.59.1.2,c.72.2.2 92530,92531 2d8aA 348 1.53e+00 2d0iA 333 1.61e+00 1tzzA 392 1.63e+00 1u7pA 164 1.85e+00 1v6zA 228 2.06e+00 2as0A 396 2.13e+00 1qnrA 344 2.23e+00 1qnoA c.1.8.3 28834 1rreA 200 2.29e+00 d.14.1.10 97791 1fp1D 372 2.50e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1h7mA 102 2.63e+00 d.79.3.1 83485 1q9jA 422 2.94e+00 c.43.1.2,c.43.1.2 104590,104591 1ymqA 261 2.98e+00 1m65A 245 3.07e+00 c.6.3.1 84847 2f9lA 199 3.18e+00 1bmtA 246 3.59e+00 1bmtA a.46.1.1,c.23.6.1 17757,31235 1vjrA 271 3.61e+00 c.108.1.14 100832 1x1zA 252 3.71e+00 1vbuA 328 4.22e+00 1frpA 335 4.41e+00 1frpA e.7.1.1 42875 1szqA 483 4.91e+00 e.44.1.1 99045 1ualA 274 5.38e+00 c.116.1.4 88383 1kmvA 186 5.91e+00 c.71.1.1 72757 1dmgA 225 5.97e+00 1dmgA c.22.1.1 31036 1im5A 180 6.01e+00 c.33.1.3 66211 1t9hA 307 6.14e+00 1fezA 256 6.29e+00 1fezA c.108.1.3 43343 1o20A 427 6.73e+00 c.82.1.1 86556 1sviA 195 6.75e+00 c.37.1.8 106048 1w41A 101 6.83e+00 1vl6A 388 6.85e+00 c.2.1.7,c.58.1.3 108724,108725 1bqcA 302 7.28e+00 1bqcA c.1.8.3 28831 1rdfA 267 7.41e+00 c.108.1.3 104884 1km4A 247 7.46e+00 c.1.2.3 72740 1lrwA 600 7.93e+00 b.70.1.1 91111 1ockA 412 8.05e+00 c.117.1.1 86802 1o4sA 389 8.08e+00 c.67.1.1 86620 1iirA 415 8.08e+00 1iirA c.87.1.5 62453 1ys4A 354 8.12e+00 1h7nA 342 8.16e+00 1b4kA c.1.10.3 60726 1gln 468 8.27e+00 1gln a.97.1.1,c.26.1.1 18752,31588 2g8lA 299 8.28e+00 1rqlA 267 8.33e+00 c.108.1.3 97750 1l7mA 211 8.55e+00 c.108.1.4 73664 1u8vA 490 8.85e+00 1j97A 211 8.88e+00 1f5sA c.108.1.4 62753 1dbgA 506 9.31e+00 1dbgA b.80.1.4 28033 1xbtA 193 9.49e+00 1dvjA 246 9.80e+00 1dvjA c.1.2.3 28546 1ohlA 342 9.84e+00 c.1.10.3 87035 1w4rA 195 1.02e+01 1dboA 506 1.02e+01 1dbgA b.80.1.4 28034 1j09A 468 1.03e+01 a.97.1.1,c.26.1.1 77025,77026 2a3nA 355 1.08e+01 9gafA 295 1.13e+01 1apyA d.153.1.5 42008 1ht6A 405 1.18e+01 b.71.1.1,c.1.8.1 83629,83630 1c30B 382 1.28e+01 c.8.3.1,c.23.16.1 30736,31413 1ea9C 583 1.33e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1swvA 267 1.38e+01 2b5wA 357 1.38e+01 1s1pA 331 1.39e+01 c.1.7.1 98350 1jp4A 308 1.40e+01 1jp4A e.7.1.1 63223 1vlmA 219 1.40e+01 c.66.1.41 108836 1mjfA 281 1.41e+01 c.66.1.17 79198 1j0hA 588 1.41e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1ii5A 233 1.47e+01 c.94.1.1 62412 3chy 128 1.49e+01 3chy c.23.1.1 31038 1zu4A 320 1.49e+01 1z85A 234 1.53e+01 1o5oA 221 1.54e+01 c.61.1.1 92509 1q8iA 783 1.59e+01 c.55.3.5,e.8.1.1 96208,96209 1j3kA 280 1.59e+01 c.71.1.1 84070 1hd2A 161 1.59e+01 c.47.1.10 60962 1dyr 206 1.61e+01 1aoeA c.71.1.1 34916 5nul 138 1.63e+01 5nul c.23.5.1 31191 1jbeA 128 1.64e+01 3chy c.23.1.1 62845 1qwnA 1045 1.69e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1knyA 253 1.70e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1zrn 232 1.71e+01 1qq5A c.108.1.1 43323 1oixA 191 1.72e+01 1oivA 191 1.76e+01 c.37.1.8 93076 1gox 370 1.77e+01 1gox c.1.4.1 28607 1wzcA 249 1.81e+01 1fgs 428 1.83e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1l6wA 220 1.92e+01 c.1.10.1 73632 1jztA 246 2.02e+01 c.104.1.1 63319 1qo2A 241 2.05e+01 1qo2A c.1.2.1 28533 1zdzA 302 2.13e+01 1tk9A 188 2.14e+01 c.80.1.3 107082 1st9A 143 2.15e+01 c.47.1.10 98987 1n8jA 186 2.19e+01 c.47.1.10 85401 2aaa 484 2.25e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1mxrA 375 2.25e+01 a.25.1.2 85197 1p4kA 295 2.26e+01 d.153.1.5 87772 2gb7A 305 2.26e+01 1rqjA 299 2.34e+01 a.128.1.1 97744 1ws6A 171 2.35e+01 1igs 248 2.36e+01 1a53 c.1.2.4 28565 2dpmA 284 2.38e+01 2dpmA c.66.1.28 34246 2ghrA 302 2.41e+01 1wwkA 307 2.44e+01 1x52A 124 2.48e+01 7taa 478 2.53e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1a9xB 379 2.55e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1pwmA 316 2.57e+01 c.1.7.1 95231 1ns5A 155 2.60e+01 c.116.1.3 80705 1nuyA 337 2.62e+01 e.7.1.1 86213 2ptd 298 2.62e+01 2plc c.1.18.2 29605 1wr2A 238 2.62e+01 2a1xA 308 2.62e+01 2aamA 309 2.64e+01 1b8gA 429 2.65e+01 1b8gA c.67.1.4 34499 2etvA 346 2.72e+01 1nnlA 225 2.77e+01 c.108.1.4 85906 2c4nA 250 2.79e+01 1w0mA 226 2.79e+01 c.1.1.1 109027 1c2pA 576 2.80e+01 1quvA e.8.1.4 43117 2f9sA 151 2.84e+01 1xikA 375 2.89e+01 1xikA a.25.1.2 16784 1vhoA 346 2.90e+01 b.49.3.1,c.56.5.4 100694,100695 2b0cA 206 2.92e+01 1g38A 393 2.93e+01 2admA c.66.1.27 60235 1xa3A 437 2.98e+01 1xf1A 926 3.01e+01 1xyzA 347 3.02e+01 1taxA c.1.8.3 28804 1wh5A 80 3.03e+01 1pb1A 416 3.11e+01 c.77.1.1 88014 1iso 416 3.14e+01 1iso c.77.1.1 35065 1a53 247 3.17e+01 1a53 c.1.2.4 28564 1othA 321 3.24e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1dmuA 299 3.31e+01 1dmuA c.52.1.4 33294 1kaeA 434 3.42e+01 c.82.1.2 72247 1j4aA 333 3.47e+01 c.2.1.4,c.23.12.1 71502,71503 1k1xA 659 3.47e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1nf8A 207 3.49e+01 c.33.1.3 85630 1r85A 379 3.51e+01 c.1.8.3 104839 1d4oA 184 3.52e+01 1d4oA c.31.1.4 31748 2gk3A 256 3.53e+01 1k77A 260 3.54e+01 c.1.15.5 72096 1ads 315 3.54e+01 1frb c.1.7.1 28671 1nf9A 207 3.55e+01 c.33.1.3 85631 1uc8A 280 3.62e+01 c.30.1.6,d.142.1.7 99165,99166 1f0kA 364 3.63e+01 1f0kA c.87.1.2 35465 1fsz 372 3.66e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 7a3hA 303 3.69e+01 7a3hA c.1.8.3 28817 1m1nB 522 3.71e+01 c.92.2.3 78418 1mi3A 322 3.78e+01 c.1.7.1 91274 1z5yE 149 3.80e+01 2bkaA 242 3.87e+01 1jfuA 186 3.87e+01 c.47.1.10 62940 1pieA 419 3.99e+01 d.14.1.5,d.58.26.7 94706,94707 2agtA 319 3.99e+01 1zj8A 566 4.00e+01 1nofA 383 4.05e+01 b.71.1.2,c.1.8.3 92020,92021 1oflA 481 4.11e+01 b.80.1.4 103934 1ak5 503 4.12e+01 1ak5 c.1.5.1 28639 1bn8A 420 4.21e+01 1pcl b.80.1.1 28022 1vq2A 193 4.22e+01 1vzwA 244 4.22e+01 1z8fA 228 4.23e+01 2fswA 107 4.25e+01 1s4qA 228 4.25e+01 c.37.1.1 98507 1ox6A 555 4.29e+01 c.1.2.1,c.23.16.1 87505,87506 1tqjA 230 4.29e+01 c.1.2.2 107228 1te2A 226 4.34e+01 c.108.1.6 106792 2b99A 156 4.38e+01 1us0A 316 4.40e+01 c.1.7.1 99850 1o08A 221 4.40e+01 c.108.1.6 86525 1z7wA 322 4.47e+01 2bogX 286 4.48e+01 1jsmA 325 4.56e+01 b.19.1.2 63264 1ur1A 378 4.62e+01 c.1.8.3 99804 2bgsA 344 4.70e+01 2cw6A 298 4.72e+01 2b49A 287 4.76e+01 1qxoA 388 4.77e+01 d.258.1.1 96539 1ww8A 439 4.88e+01 1pa1A 310 4.90e+01 c.45.1.2 94404 1np6A 174 4.92e+01 c.37.1.10 85954 1g66A 207 4.93e+01 1bs9 c.69.1.30 31329 1bli 483 5.05e+01 1bli b.71.1.1,c.1.8.1 27715,28702 1inlA 296 5.08e+01 c.66.1.17 66220 1sgwA 214 5.09e+01 c.37.1.12 105541 1e79D 482 5.10e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1rhs 296 5.23e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1vmeA 410 5.29e+01 c.23.5.1,d.157.1.3 108893,108894 1v8gA 329 5.29e+01 a.46.2.1,c.27.1.1 100505,100506 2fz4A 237 5.29e+01 1pswA 348 5.35e+01 c.87.1.7 88287 1jvnA 555 5.42e+01 c.1.2.1,c.23.16.1 67355,67356 1kwgA 645 5.49e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1uok 558 5.56e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1fts 295 5.57e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 2bpqA 373 5.58e+01 1w6sA 599 5.65e+01 1z41A 338 5.69e+01 1jbwA 428 5.71e+01 c.59.1.2,c.72.2.2 62860,62861 1o17A 345 5.72e+01 a.46.2.1,c.27.1.1 80765,80766 1i60A 278 5.76e+01 c.1.15.4 71118 1t0fA 276 5.82e+01 1ur3M 319 5.82e+01 c.1.7.1 99806 2atvA 196 5.88e+01 1a3c 181 5.91e+01 1a3c c.61.1.1 34095 1qtwA 285 5.99e+01 1qumA c.1.15.1 29392 1ks8A 433 6.03e+01 a.102.1.2 77519 1ad3A 452 6.04e+01 1ad3A c.82.1.1 35335 1ef8A 261 6.08e+01 1ef8A c.14.1.3 30921 1o0xA 262 6.08e+01 d.127.1.1 80755 1wdiA 345 6.16e+01 2f6sA 201 6.19e+01 1uufA 369 6.19e+01 b.35.1.2,c.2.1.1 100006,100007 1pn2A 280 6.23e+01 d.38.1.4,d.38.1.4 94930,94931 1xfiA 367 6.29e+01 e.50.1.1 109584 1cl8A 276 6.34e+01 1ckqA c.52.1.1 33230 1byi 224 6.35e+01 1byi c.37.1.10 32199 2h03A 291 6.40e+01 1msk 331 6.40e+01 1msk d.173.1.1 42495 2hc1A 291 6.44e+01 1yvkA 163 6.51e+01 1mx3A 347 6.65e+01 c.2.1.4,c.23.12.1 79638,79639 1cm5A 759 6.66e+01 1cm5A c.7.1.1 30671 1qh4A 380 6.67e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 2f7fA 494 6.67e+01 1pe9A 361 6.75e+01 b.80.1.1 94595 1rkd 309 6.75e+01 1rkd c.72.1.1 34928 2d27A 149 6.76e+01 2ao0A 324 6.81e+01 1vr8A 142 6.82e+01 1n3lA 372 6.83e+01 c.26.1.1 79966 1htyA 1015 6.83e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1ozjA 144 6.89e+01 d.164.1.1 93846 1h8eD 482 6.90e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1m3uA 264 6.91e+01 c.1.12.8 84784 2amxA 376 6.94e+01 1n82A 331 6.96e+01 c.1.8.3 91703 1z7yA 322 6.96e+01 1bx4A 345 6.96e+01 1bx4A c.72.1.1 34935 1bgvA 449 6.98e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1yqdA 366 7.05e+01 1wwuA 99 7.10e+01 1qcwA 410 7.11e+01 1gox c.1.4.1 28622 2fv7A 331 7.11e+01 1tp9A 162 7.18e+01 2c1gA 431 7.20e+01 1zq6A 359 7.21e+01 1cnv 299 7.23e+01 1cnv c.1.8.5 28989 1tml 286 7.28e+01 1tml c.6.1.1 30656 2aegA 268 7.29e+01 1cs1A 386 7.30e+01 1ibjA c.67.1.3 34399 1e43A 483 7.31e+01 1bli b.71.1.1,c.1.8.1 59217,59218 1lbvA 252 7.38e+01 e.7.1.1 73813 2iu4A 336 7.39e+01 1uu1A 335 7.40e+01 c.67.1.1 99993 1cydA 244 7.41e+01 1cydA c.2.1.2 29825 1g6sA 427 7.60e+01 1eps d.68.2.2 39584 1v02A 565 7.61e+01 c.1.8.4 108194 1d1gA 168 7.63e+01 1d1gA c.71.1.1 34889 1m15A 357 7.66e+01 a.83.1.1,d.128.1.2 78368,78369 1frb 315 7.68e+01 1frb c.1.7.1 28665 1c7nA 399 7.70e+01 1d2fA c.67.1.3 34413 1eokA 290 7.73e+01 1eokA c.1.8.5 28991 1pv9A 348 7.74e+01 c.55.2.1,d.127.1.1 95157,95158 2ck3D 482 7.78e+01 1m7yA 435 7.80e+01 c.67.1.4 78761 1n4qB 377 7.87e+01 a.102.4.3 91636 2f6uA 234 7.93e+01 2g64A 140 7.95e+01 1z7gA 217 7.97e+01 1dbiA 280 7.97e+01 1gci c.41.1.1 32543 1g6hA 257 8.00e+01 1gajA c.37.1.12 60318 1m1nA 491 8.04e+01 c.92.2.3 78417 2fliA 220 8.09e+01 2cygA 312 8.12e+01 1lehA 364 8.16e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1iuqA 367 8.26e+01 c.112.1.1 90703 1ikpA 613 8.26e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1dkuA 317 8.33e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1k30A 368 8.34e+01 c.112.1.1 68067 1bg0 356 8.41e+01 1qh4A a.83.1.1,d.128.1.2 18476,41211 2gm3A 175 8.43e+01 1np7A 489 8.52e+01 a.99.1.1,c.28.1.1 80677,80678 1fcjA 322 8.54e+01 1oasA c.79.1.1 35289 2fr1A 486 8.55e+01 1e3mA 800 8.57e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1ag9A 175 8.59e+01 1rcf c.23.5.1 31178 2au3A 407 8.61e+01 1t4bA 367 8.66e+01 c.2.1.3,d.81.1.1 106406,106407 1uylA 236 8.72e+01 d.122.1.1 108147 1rybA 212 8.74e+01 c.56.3.1 98098 1l0wA 580 8.76e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1ytlA 174 8.78e+01 1e5dA 402 8.93e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 2g2cA 167 8.93e+01 1fthA 122 8.94e+01 d.150.1.2 60028