# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1wywA 230 5.70e-18 c.18.1.2 144566 1mugA 168 8.63e-17 1mugA c.18.1.2 31030 2c2pA 199 1.45e-15 2c2qA 199 2.02e-15 1ui0A 205 5.22e-04 c.18.1.2 99411 1vk2A 204 9.85e-04 c.18.1.2 100845 1l9gA 192 1.05e-03 c.18.1.2 84568 2d3yA 219 1.64e-03 1oe4A 247 2.89e-02 c.18.1.3 86895 3ikbA 198 9.08e-02 2yv8A 164 2.02e-01 2w51A 158 1.27e+00 2yv1A 294 2.28e+00 1yvwA 115 2.55e+00 a.204.1.4 124122 3aayA 277 3.51e+00 1a8pA 258 3.85e+00 b.43.4.2,c.25.1.1 25654,31544 3hwiA 298 3.93e+00 1jl3A 139 4.25e+00 c.44.1.1 66826 1n4aA 252 4.26e+00 c.92.2.2 85317 1pfkA 320 4.89e+00 3pfk c.89.1.1 35575 2j13A 247 5.12e+00 c.6.2.3 137934 2pfkA 320 5.13e+00 3pfk c.89.1.1 35577 3l51B 166 5.13e+00 2nyuA 196 5.27e+00 6pfkA 319 5.75e+00 3pfk c.89.1.1 35583 1txgA 335 5.98e+00 a.100.1.6,c.2.1.6 112775,112776 1nd4A 264 6.07e+00 d.144.1.6 91815 3pfk 319 6.32e+00 3pfk 3f4wA 211 6.42e+00 3hdvA 136 6.56e+00 1vmaA 306 7.19e+00 a.24.13.1,c.37.1.10 108887,108888 3js6A 355 7.43e+00 1ta9A 450 7.85e+00 1tk9A 188 7.86e+00 c.80.1.3 107082 1h7wA 1025 8.81e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1gteA 1025 8.86e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2wawA 199 8.87e+00 2a5hA 416 8.90e+00 2qdxA 257 8.92e+00 1zrnA 232 8.99e+00 c.108.1.1 43323 2p9jA 162 9.06e+00 2v6gA 364 9.22e+00 3brjA 175 9.27e+00 a.285.1.1 155511 3dmyA 480 9.44e+00 1zbsA 291 9.90e+00 c.55.1.5,c.55.1.5 124870,124871 1yqzA 438 1.04e+01 1b9hA 388 1.05e+01 1b9hA c.67.1.4 34488 1inp 400 1.05e+01 1inp 1inpA 400 1.05e+01 e.7.1.1 42972 2owrA 218 1.07e+01 3ifrA 508 1.07e+01 2obnA 349 1.07e+01 1h7xA 1025 1.08e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1n2zA 245 1.08e+01 c.92.2.2 79865 1sr8A 298 1.13e+01 e.54.1.1 105959 2ewsA 287 1.14e+01 c.55.1.14 146991 2yxxA 386 1.18e+01 1u1jA 765 1.19e+01 c.1.22.2,c.1.22.2 107590,107591 3jsrA 119 1.22e+01 1xdiA 499 1.23e+01 c.3.1.5,d.87.1.1 115160,115161 1jp4A 308 1.25e+01 1jp4A e.7.1.1 63223 3biyA 380 1.32e+01 2vosA 487 1.32e+01 2qnlA 162 1.32e+01 1cliA 345 1.33e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2r5vA 357 1.34e+01 2h9bA 312 1.34e+01 1yaaA 412 1.35e+01 1ajsA c.67.1.1 34280 3h4tA 404 1.35e+01 2btuA 346 1.37e+01 3irsA 291 1.38e+01 2a11A 242 1.39e+01 2jc4A 256 1.40e+01 3c97A 140 1.42e+01 3bqwA 351 1.43e+01 3dfrA 162 1.50e+01 c.71.1.1 34880 3dfr 162 1.50e+01 3dfr 3mag 307 1.63e+01 3mag 2rjnA 154 1.67e+01 1y7pA 223 1.69e+01 c.23.1.7,d.58.18.12 122708,122709 2jfgA 445 1.69e+01 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1fexA 59 1.74e+01 a.4.1.3 59803 3cx3A 284 1.76e+01 1ltzA 297 1.85e+01 d.178.1.1 74254 1v39 322 1.85e+01 3mag 2p75A 177 1.89e+01 1v37A 177 1.91e+01 c.60.1.1 113497 3icsA 588 1.92e+01 2pk8A 103 1.93e+01 d.274.1.1 139707 3lopA 364 1.95e+01 2dumA 170 1.99e+01 1n8fA 350 2.00e+01 c.1.10.4 85397 2g80A 253 2.00e+01 c.108.1.22 134741 2hqlA 110 2.06e+01 2p0nA 172 2.10e+01 1q7bA 244 2.11e+01 c.2.1.2 96026 1tzzA 392 2.11e+01 c.1.11.2,d.54.1.1 112896,112897 1vpt 348 2.11e+01 3mag 1vptA 348 2.11e+01 c.66.1.25 34207 3cz5A 153 2.27e+01 3g85A 289 2.28e+01 1njhA 119 2.29e+01 b.128.1.1 85787 3crnA 132 2.29e+01 4uagA 437 2.30e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 3fw2A 150 2.33e+01 3c5vA 316 2.34e+01 2hldG 278 2.34e+01 1jv2B 692 2.35e+01 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 1zbfA 142 2.41e+01 c.55.3.1 124850 1nbuA 119 2.43e+01 d.96.1.3 91767 1huxA 270 2.47e+01 1huxA c.55.1.5 61278 1c3oA 1073 2.47e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 2bl9A 238 2.49e+01 1nrwA 288 2.53e+01 c.108.1.10 86128 1nbuC 119 2.56e+01 d.96.1.3 91769 2p51A 333 2.57e+01 3he8A 149 2.58e+01 1iirA 415 2.60e+01 1iirA c.87.1.5 62453 3c3pA 210 2.62e+01 1xviA 275 2.62e+01 c.108.1.10 116088 3epwA 338 2.78e+01 3d0cA 314 2.78e+01 3enbA 222 2.78e+01 c.55.3.14 158189 1zsyA 357 2.79e+01 1av6A 289 2.84e+01 3mag c.66.1.25 34218 1y56A 493 2.86e+01 3lerA 301 2.86e+01 2go7A 207 2.86e+01 c.108.1.6 135434 3b9gA 328 2.88e+01 1r85A 379 2.89e+01 c.1.8.3 104839 3e58A 214 2.91e+01 3i7aA 281 2.97e+01 1ivnA 190 2.97e+01 c.23.10.5 83719 3ftbA 361 2.99e+01 1eyyA 510 3.05e+01 1eyyA c.82.1.1 35389 1tyeB 440 3.08e+01 b.1.15.1,c.62.1.1,g.16.2.1 112830,112831,112832 2j6lA 500 3.09e+01 3l0zA 350 3.12e+01 1xhcA 367 3.14e+01 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1r5yA 386 3.16e+01 c.1.20.1 97134 2f48A 555 3.19e+01 c.89.1.1 132915 1f2dA 341 3.22e+01 1f2dA c.79.1.1 35298 3llcA 270 3.22e+01 2w2gA 264 3.23e+01 1ig8A 486 3.23e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 3itjA 338 3.24e+01 1oeyA 83 3.26e+01 d.15.2.2 92800 3c65A 226 3.26e+01 4eugA 229 3.26e+01 3eugA c.18.1.1 31019 1nbuB 119 3.29e+01 d.96.1.3 91768 3bjnA 165 3.34e+01 2oogA 287 3.36e+01 3kizA 394 3.37e+01 1ez0A 510 3.39e+01 1eyyA c.82.1.1 35385 2ooaA 52 3.40e+01 1flzA 228 3.42e+01 3eugA c.18.1.1 31027 3graA 202 3.46e+01 1eugA 229 3.50e+01 3eugA c.18.1.1 31021 1k1xA 659 3.55e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 3lk7A 451 3.56e+01 3gr3A 230 3.60e+01 1pot 325 3.62e+01 1pot 1potA 325 3.62e+01 c.94.1.1 35807 2e1mB 130 3.63e+01 3eugA 229 3.66e+01 3eugA c.18.1.1 31018 3cg0A 140 3.68e+01 1j6rA 214 3.76e+01 d.173.1.2 71598 1u8xX 472 3.76e+01 c.2.1.5,d.162.1.2 107741,107742 2b1eA 564 3.79e+01 1zd0A 150 3.80e+01 d.329.1.1 124927 2r9zA 463 3.80e+01 1hozA 339 3.83e+01 c.70.1.1 65898 1bx1A 314 3.84e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1b43A 340 3.85e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 3hfyA 386 3.88e+01 3id5C 130 3.89e+01 1uirA 314 3.92e+01 c.66.1.17 99429 1gg1A 350 3.95e+01 1qr7A c.1.10.4 29187 2yquA 455 3.96e+01 1mioB 458 3.97e+01 1qguB c.92.2.3 35602 1gsjA 258 3.97e+01 c.73.1.2 70397 1vejA 74 3.99e+01 a.5.2.1 120020 1l2tA 235 4.04e+01 c.37.1.12 73514 1v5tA 90 4.06e+01 d.15.1.1 108385 1ivhA 394 4.06e+01 3mdeA a.29.3.1,e.6.1.1 16608,42869 2vcyA 344 4.12e+01 2nocA 99 4.14e+01 d.230.6.1 148323 1r5tA 142 4.18e+01 c.97.1.1 104812 1pud 386 4.18e+01 1pud 1gesA 450 4.19e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 3ghfA 120 4.25e+01 1t6t1 118 4.26e+01 3m5vA 301 4.28e+01 1zgdA 312 4.31e+01 3ef6A 410 4.31e+01 2c0rA 362 4.33e+01 c.67.1.4 129604 2q8pA 260 4.34e+01 3e23A 211 4.35e+01 3aekA 437 4.37e+01 3gjwA 350 4.37e+01 1dcfA 136 4.41e+01 1dcfA c.23.1.2 31124 1eqnA 321 4.42e+01 1dd9A e.13.1.1 43256 1iqpA 327 4.48e+01 a.80.1.1,c.37.1.20 62649,62650 3fiuA 249 4.48e+01 2iueA 212 4.54e+01 1mo9A 523 4.55e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 3ipwA 325 4.55e+01 2o9xA 181 4.58e+01 a.184.1.1 148689 1v72A 356 4.59e+01 c.67.1.1 119860 1nv8A 284 4.60e+01 c.66.1.30 86224 2a6nA 292 4.60e+01 c.1.10.1 126289 1jftA 340 4.60e+01 a.35.1.5,c.93.1.1 66652,66653 2waxA 193 4.61e+01 3fl8A 166 4.62e+01 1dd9A 338 4.63e+01 1dd9A e.13.1.1 43254 1d1gA 168 4.64e+01 1d1gA c.71.1.1 34889 3eb2A 300 4.71e+01 1ss3A 50 4.73e+01 g.2.3.1 105975 1j3kA 280 4.74e+01 c.71.1.1 84070 1a3wA 500 4.75e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1cbfA 285 4.85e+01 c.90.1.1 35587 1vdyA 140 4.86e+01 2pt7A 330 4.88e+01 c.37.1.11 149834 1gs5A 258 4.90e+01 c.73.1.2 70395 2fgeA 995 4.93e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 133430,133431,133432,133433 1zjjA 263 4.94e+01 1q1rA 431 4.94e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2ahrA 259 5.03e+01 a.100.1.10,c.2.1.6 126775,126776 3b7xA 134 5.05e+01 3f2iA 172 5.07e+01 2z43A 324 5.09e+01 1yqtA 538 5.10e+01 1iv8A 720 5.11e+01 b.71.1.1,c.1.8.1 76842,76843 3etnA 220 5.14e+01 1twiA 434 5.16e+01 b.49.2.3,c.1.6.1 107399,107400 3ilhA 146 5.18e+01 1qpzA 340 5.23e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 2ehhA 294 5.24e+01 2kctA 94 5.26e+01 1wm1A 317 5.29e+01 c.69.1.7 109405 2jfzA 255 5.34e+01 2hf9A 226 5.35e+01 2fu4A 83 5.36e+01 3gd3A 535 5.36e+01 1b2sD 90 5.39e+01 1ay7B c.9.1.1 30837 3lhfA 140 5.41e+01 1wzuA 300 5.44e+01 c.145.1.1 121528 3kyiB 145 5.44e+01 1r9kA 172 5.48e+01 a.168.1.1 104869 1m1nB 522 5.50e+01 c.92.2.3 78418 2ga9A 297 5.51e+01 c.66.1.25 134885 2blcA 238 5.52e+01 2ogxB 270 5.52e+01 1j0dA 341 5.52e+01 c.79.1.1 83902 2vdrB 461 5.54e+01 1eikA 77 5.55e+01 1eikA d.78.1.1 39751 2ojpA 292 5.56e+01 3do6A 543 5.59e+01 2v43A 303 5.61e+01 1neyA 247 5.63e+01 c.1.1.1 80449 3lb8A 436 5.63e+01 3bs4A 260 5.66e+01 1tufA 434 5.75e+01 b.49.2.3,c.1.6.1 107335,107336 2azpA 318 5.75e+01 1brmA 367 5.76e+01 1brmA c.2.1.3,d.81.1.1 30030,39945 1s3eA 520 5.78e+01 c.3.1.2,d.16.1.5 98426,98427 2h2wA 312 5.80e+01 2hy1A 280 5.82e+01 d.159.1.11 147437 1gv4A 528 5.85e+01 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1vpwA 340 5.85e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 2p4bA 295 5.87e+01 3c4rA 151 5.89e+01 2aplA 157 5.90e+01 a.258.1.1 127132 2cduA 452 5.91e+01 3kjrA 511 5.96e+01 1zosA 230 6.03e+01 2purA 292 6.04e+01 2pqmA 343 6.04e+01 3ha9A 165 6.07e+01 3gnlA 244 6.07e+01 2qezA 455 6.07e+01 2nq5A 755 6.09e+01 3a8jA 364 6.10e+01 2ar0A 541 6.12e+01 c.66.1.45 127185 1i45A 248 6.12e+01 1amk c.1.1.1 61665 1u0tA 307 6.12e+01 e.52.1.1 107567 1vloA 381 6.17e+01 b.44.2.1,d.250.1.1 108838,108839 1qtrA 317 6.20e+01 1qtrA c.69.1.7 34660 1e0tA 470 6.21e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2yzsA 315 6.31e+01 1a9xA 1058 6.35e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1svvA 359 6.38e+01 c.67.1.1 106054 4dfrA 159 6.38e+01 1vdrA c.71.1.1 34822 1eziA 228 6.40e+01 1eyrA c.68.1.13 34512 3hixA 106 6.41e+01 3cpkA 150 6.45e+01 1fukA 165 6.46e+01 1fukA c.37.1.19 32409 2a6lA 292 6.46e+01 c.1.10.1 126285 3ed5A 238 6.46e+01 1l3iA 192 6.49e+01 c.66.1.22 77676 3khiA 267 6.53e+01 3kbbA 216 6.53e+01 1qhtA 775 6.53e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 2qtrA 189 6.54e+01 1pwhA 327 6.55e+01 c.79.1.1 95224 3a8kA 364 6.56e+01 2fc3A 124 6.58e+01 d.79.3.1 147019 3icjA 534 6.65e+01 2pibA 216 6.76e+01 1oi7A 288 6.79e+01 c.2.1.8,c.23.4.1 87049,87050 1b0aA 288 6.81e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 3k9rA 115 6.84e+01 1dbqA 289 6.86e+01 1qpzA c.93.1.1 35666 1vk9A 151 6.89e+01 c.97.1.3 108640 2wagA 220 6.92e+01 2c12A 439 7.01e+01 a.29.3.1,e.6.1.1 129616,129617 3g5bA 405 7.02e+01 1rj9A 304 7.02e+01 a.24.13.1,c.37.1.10 97553,97554 1xvlA 321 7.05e+01 c.92.2.2 122380 2d0iA 333 7.07e+01 2or0A 414 7.07e+01 3datA 162 7.10e+01 1ay7B 89 7.13e+01 1ay7B c.9.1.1 30836 3dv9A 247 7.15e+01 2a22A 215 7.21e+01 d.159.1.7 126025 1n1jB 97 7.22e+01 a.22.1.3 79814 3b2nA 133 7.24e+01 3bldA 386 7.26e+01 2h98A 313 7.26e+01 2vkvA 208 7.33e+01 a.4.1.9,a.121.1.1 153230,153231 3h93A 192 7.41e+01 1vpkA 378 7.43e+01 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 1nuiA 255 7.49e+01 e.13.1.2,g.41.3.2 86194,86195 1n2eA 300 7.52e+01 c.26.1.4 85268 2c4nA 250 7.60e+01 c.108.1.14 129837 1l7bA 92 7.61e+01 c.15.1.2 91053 2qniA 219 7.62e+01 1nxuA 333 7.62e+01 c.122.1.1 86389 2gffA 106 7.63e+01 1mjfA 281 7.64e+01 c.66.1.17 79198 2f07A 197 7.64e+01 1pgl2 370 7.68e+01 1y89A 238 7.68e+01 1g6oA 330 7.75e+01 1g6oA c.37.1.11 32430 1zedA 484 7.76e+01 c.76.1.1 124980 3ce9A 354 7.76e+01 2gm2A 132 7.82e+01 2atsA 292 7.82e+01 c.1.10.1 127306 7timA 247 7.89e+01 1amk c.1.1.1 28457 1fnc 314 7.94e+01 1fnc 3dr4A 391 7.98e+01 3brcA 156 7.98e+01