# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1gp6A 356 3.17e-52 b.82.2.1 65441 1w9yA 319 1.17e-48 b.82.2.1 120801 1odmA 331 4.56e-37 b.82.2.1 86875 1dcs 311 1.47e-24 1dcs 1dcsA 311 1.47e-24 b.82.2.1 28124 2hbtA 247 8.78e-02 1lwjA 441 1.68e-01 b.71.1.1,c.1.8.1 74303,74304 1m3uA 264 1.86e-01 c.1.12.8 84784 2g19A 244 2.29e-01 3mqtA 394 2.85e-01 3h1pA 260 3.07e-01 3hs5A 591 4.41e-01 1p7gA 222 5.54e-01 a.2.11.1,d.44.1.1 94223,94224 3krkA 591 5.85e-01 1nx8A 273 7.38e-01 b.82.2.8 86374 2inpA 494 7.66e-01 3muxA 251 8.14e-01 2zxrA 666 8.54e-01 2a1xA 308 9.02e-01 b.82.2.9 126022 2csgA 424 1.08e+00 b.82.2.12 130768 3hs3A 277 1.09e+00 3fvyA 728 1.21e+00 3gqiA 326 1.32e+00 3m6yA 275 1.63e+00 2epjA 434 1.65e+00 3kxxA 317 1.75e+00 2du3A 534 1.99e+00 2ps2A 371 2.10e+00 2rdqA 288 2.18e+00 3lm7A 249 2.57e+00 1vr3A 191 2.69e+00 b.82.1.6 120431 2gm6A 208 2.88e+00 b.82.1.19 147130 3emrA 310 2.93e+00 1ht6A 405 3.36e+00 b.71.1.1,c.1.8.1 83629,83630 2c43A 323 3.47e+00 3i1jA 247 3.67e+00 1gg3A 279 3.91e+00 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 3itqA 216 3.91e+00 2fvkA 559 4.15e+00 b.92.1.3,c.1.9.6 134204,134205 2aaa 484 4.37e+00 7taa 2aaaA 484 4.37e+00 b.71.1.1,c.1.8.1 27777,28764 2hk0A 309 4.42e+00 2z67A 456 4.44e+00 c.67.1.9 154170 2qtpA 194 4.54e+00 d.79.9.1 151354 2i7cA 283 4.54e+00 1ua7A 422 4.58e+00 b.71.1.1,c.1.8.1 107759,107760 1j6oA 268 4.70e+00 c.1.9.12 77088 2odkA 89 4.75e+00 d.306.1.1 139030 1bag 425 5.02e+00 1bag 3e82A 364 5.21e+00 3fqdA 899 5.61e+00 2bg5A 324 5.75e+00 1xmxA 385 5.78e+00 c.52.1.26 115568 3c8bA 432 6.01e+00 2pjzA 263 6.17e+00 1b9bA 255 6.52e+00 1amk c.1.1.1 28531 1rdo1 113 6.54e+00 1rtm1 1vraB 215 6.79e+00 1ev0A 58 6.81e+00 1ev0A d.71.1.1 39594 3i6iA 346 6.89e+00 2vknA 70 7.70e+00 1qwgA 251 7.83e+00 c.1.27.1 96473 3h9eA 346 7.87e+00 2plrA 213 8.18e+00 2nxwA 565 8.72e+00 3k40A 475 9.09e+00 1yn9A 169 9.10e+00 2wgpA 190 9.19e+00 3mkvA 426 9.64e+00 2r8cA 426 9.75e+00 b.92.1.9,c.1.9.18 151698,151699 3bonA 425 9.90e+00 d.92.1.7 155457 1ve3A 227 1.01e+01 c.66.1.43 120010 3feqA 423 1.03e+01 1zh8A 340 1.04e+01 c.2.1.3,d.81.1.5 125077,125078 2cw5A 255 1.07e+01 1gqiA 708 1.08e+01 c.1.8.10,d.92.2.2 76279,76280 3bevA 274 1.08e+01 1k8kA 418 1.09e+01 c.55.1.1,c.55.1.1 68305,68306 2j69A 695 1.10e+01 1gpuA 680 1.11e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1xedA 117 1.11e+01 b.1.1.1 115229 2akoA 251 1.11e+01 c.73.1.3 126923 2d2rA 245 1.12e+01 2aexA 346 1.17e+01 3iieA 401 1.21e+01 2dplA 308 1.22e+01 2infA 359 1.25e+01 1o66A 275 1.26e+01 c.1.12.8 92547 1tq5A 242 1.27e+01 b.82.1.12 119311 3js2A 317 1.36e+01 1fgkA 310 1.37e+01 1fgkA d.144.1.7 41693 3mkcA 394 1.39e+01 2rg4A 216 1.40e+01 3gfzA 413 1.41e+01 1trkA 680 1.41e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 3l55A 353 1.41e+01 2q09A 416 1.48e+01 b.92.1.10,c.1.9.17 149984,149985 3m0zA 249 1.49e+01 1r9dA 787 1.49e+01 c.7.1.1 104865 2basA 431 1.50e+01 c.1.33.1,d.110.6.2 128244,128245 3k95A 669 1.51e+01 3h3eA 267 1.52e+01 3m49A 690 1.52e+01 1e5rA 290 1.53e+01 1e5rA b.82.2.4 59276 2z1uA 343 1.57e+01 3hylA 690 1.57e+01 1r0kA 388 1.57e+01 a.69.3.1,c.2.1.3,d.81.1.3 104723,104724,104725 1jo0A 98 1.59e+01 d.68.4.1 77140 2vwkA 773 1.63e+01 c.55.3.5,e.8.1.1 153677,153678 3gfaA 198 1.69e+01 1vlwA 217 1.72e+01 c.1.10.1 108868 2guyA 478 1.72e+01 b.71.1.1,c.1.8.1 135754,135755 2nacA 393 1.73e+01 2nadA c.2.1.4,c.23.12.1 30088,31348 1us0A 316 1.74e+01 c.1.7.1 99850 1uz5A 402 1.74e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2o9xA 181 1.74e+01 a.184.1.1 148689 2kngA 55 1.76e+01 1q3eA 207 1.77e+01 b.82.3.2 95669 1eluA 390 1.79e+01 1elqA c.67.1.3 34434 1elqA 390 1.79e+01 1elqA c.67.1.3 34436 2gc1A 188 1.80e+01 b.82.1.7 134928 1frb 315 1.82e+01 1frb 1s5jA 847 1.83e+01 c.55.3.5,e.8.1.1 112040,112041 3d26A 301 1.83e+01 7taa 478 1.84e+01 7taa 3dyjA 332 1.86e+01 1chkA 238 1.86e+01 1chkA d.2.1.7 36999 1ea9C 583 1.88e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 2gfoA 396 1.90e+01 d.3.1.9 135105 3bpzA 202 1.93e+01 1ml4A 308 1.93e+01 c.78.1.1,c.78.1.1 79255,79256 1ir6A 424 1.94e+01 c.107.1.2 71342 3kwkA 175 1.96e+01 1qxrA 189 1.98e+01 b.82.1.7 96552 1x82A 190 1.99e+01 b.82.1.7 114955 2c0rA 362 1.99e+01 c.67.1.4 129604 3elfA 349 1.99e+01 3d79A 179 2.02e+01 1d8cA 723 2.02e+01 1d8cA c.1.13.1 29325 1fs1B 141 2.03e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1wyxA 69 2.08e+01 2qs8A 418 2.10e+01 b.92.1.9,c.1.9.18 151311,151312 3a4mA 260 2.10e+01 2ww2A 737 2.11e+01 2opwA 291 2.12e+01 2dvtA 327 2.12e+01 c.1.9.15 131793 3gb5A 259 2.12e+01 2v82A 212 2.17e+01 2hcuA 213 2.18e+01 3d1kA 142 2.26e+01 a.1.1.2 157208 1ja9A 274 2.27e+01 c.2.1.2 62817 2a8aA 439 2.28e+01 2nogA 173 2.30e+01 1p7tA 731 2.30e+01 c.1.13.1 94319 2aa1A 144 2.31e+01 a.1.1.2 126463 1d8wA 426 2.31e+01 1de5A c.1.15.2 29394 1ex0A 731 2.33e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1np7A 489 2.34e+01 a.99.1.1,c.28.1.1 80677,80678 1iurA 88 2.34e+01 a.2.3.1 90704 3g1aA 228 2.36e+01 1wzaA 488 2.36e+01 b.71.1.1,c.1.8.1 121489,121490 1h5yA 253 2.37e+01 c.1.2.1 65638 1vctA 205 2.38e+01 a.7.12.1,d.286.1.1 119986,119987 2pvfA 334 2.38e+01 1r6wA 322 2.39e+01 c.1.11.2,d.54.1.1 97165,97166 1j3mA 129 2.40e+01 d.129.7.1 103836 1evuA 731 2.40e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 2ok8A 316 2.43e+01 2glxA 332 2.43e+01 1km3A 247 2.50e+01 c.1.2.3 72739 1km4A 247 2.50e+01 c.1.2.3 72740 3g1vA 228 2.51e+01 2f42A 179 2.51e+01 3jqqA 316 2.52e+01 1jilA 420 2.53e+01 c.26.1.1 66745 2zz5A 252 2.53e+01 1xxlA 239 2.54e+01 c.66.1.41 116203 1ads 315 2.58e+01 1frb 3fgxA 114 2.60e+01 1wzcA 249 2.65e+01 c.108.1.10 121491 2zz2A 252 2.66e+01 1ixkA 315 2.68e+01 c.66.1.38 90716 2j43A 219 2.69e+01 b.3.1.3,b.3.1.3 147864,147865 1x1zA 252 2.70e+01 c.1.2.3 121613 2c42A 1231 2.73e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 129790,129791,129792,129793,129794 2wozA 318 2.73e+01 2bfgA 503 2.74e+01 b.71.1.2,c.1.8.3 128423,128424 2p91A 285 2.76e+01 3lwfA 159 2.78e+01 3gyyA 341 2.80e+01 3gqlA 326 2.81e+01 1ohvA 472 2.81e+01 c.67.1.4 93031 3labA 217 2.81e+01 1dvjA 246 2.84e+01 1dvjA c.1.2.3 28546 3bioA 304 2.89e+01 2fctA 313 2.91e+01 b.82.2.9 133282 1q4gA 553 2.92e+01 a.93.1.2,g.3.11.1 95789,95790 1js3A 486 3.10e+01 c.67.1.6 67215 2d6yA 202 3.10e+01 a.4.1.9,a.121.1.1 131313,131314 3d4iA 273 3.14e+01 3aekB 525 3.17e+01 1w8iA 156 3.22e+01 c.120.1.1 114368 1snyA 267 3.26e+01 c.2.1.2 105833 1v02A 565 3.32e+01 c.1.8.4 108194 2v9yA 334 3.33e+01 1u06A 62 3.34e+01 b.34.2.1 119404 3gg7A 254 3.38e+01 2r4gA 267 3.38e+01 2v4iA 173 3.39e+01 1yz4A 160 3.40e+01 3g1yA 228 3.42e+01 3k3qB 252 3.43e+01 3f6aA 159 3.43e+01 1txkA 498 3.45e+01 b.1.18.2,b.30.5.9 107425,107426 1yb2A 275 3.46e+01 c.66.1.13 122868 1nxmA 197 3.49e+01 b.82.1.1 86385 2bgsA 344 3.53e+01 1g6hA 257 3.56e+01 1gajA c.37.1.12 60318 1ejnA 253 3.59e+01 5ptp b.47.1.2 26356 1h6zA 913 3.60e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1v4xA 144 3.61e+01 a.1.1.2 108363 3gnhA 403 3.63e+01 2cw8A 537 3.64e+01 1r9jA 673 3.66e+01 c.36.1.6,c.36.1.10,c.48.1.1 111722,111723,111724 1oo0A 147 3.71e+01 d.232.1.1 87182 2qjwA 176 3.73e+01 2qn0A 430 3.73e+01 3e10A 168 3.82e+01 3g07A 292 3.83e+01 2bgxA 261 3.84e+01 a.20.1.1,d.118.1.1 128504,128505 2krcA 99 3.87e+01 3d2yA 261 3.88e+01 2he7A 283 3.90e+01 2bs9A 503 3.93e+01 b.71.1.2,c.1.8.3 129062,129063 1erjA 393 3.93e+01 1erjA b.69.4.1 27660 3me5A 482 3.95e+01 2ebjA 192 3.97e+01 2ts1 419 4.01e+01 2ts1 1gegA 256 4.02e+01 1ybvA c.2.1.2 29888 1dfaA 454 4.03e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 3a1yG 284 4.08e+01 2qkwA 164 4.09e+01 a.8.8.1 150848 1otjA 283 4.10e+01 b.82.2.5 93517 3bh4A 483 4.11e+01 3dsqA 288 4.13e+01 2dhqA 146 4.17e+01 2dhqA c.23.13.1 31382 2zumA 458 4.22e+01 2rfbA 343 4.25e+01 2zz3A 252 4.30e+01 2o88A 58 4.30e+01 3bb0A 609 4.31e+01 3gdoA 358 4.32e+01 3db2A 354 4.32e+01 2ogtA 498 4.33e+01 2yvwA 425 4.34e+01 1hd3A 62 4.38e+01 b.34.2.1 65802 3eg3A 63 4.39e+01 2fphX 165 4.41e+01 3gyzA 151 4.58e+01 1aboA 62 4.60e+01 1bbzA b.34.2.1 24474 1zd8A 227 4.62e+01 2zz4A 252 4.65e+01 2w2eA 279 4.67e+01 3jwgA 219 4.68e+01 1zmoA 244 4.68e+01 1h05A 146 4.72e+01 c.23.13.1 76433 1dmhA 311 4.72e+01 1dmhA b.3.6.1 22633 3cnlA 262 4.73e+01 3ecyA 160 4.74e+01 2z6iA 332 4.77e+01 1amy 403 4.77e+01 1jdc 1t3cA 421 4.78e+01 d.92.1.7 106343 3b4wA 495 4.79e+01 2ak3A 226 4.82e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1vns 609 4.82e+01 1vns 1vnsA 609 4.82e+01 a.111.1.3 19061 2djfA 119 4.83e+01 b.61.5.1 131541 3m3mA 210 4.89e+01 1nh1A 330 4.89e+01 e.45.1.1 91871 1i4nA 251 4.92e+01 c.1.2.4 71114 3hf2A 482 5.00e+01 1u3wA 374 5.04e+01 b.35.1.2,c.2.1.1 113013,113014 2oy9A 98 5.09e+01 a.276.1.1 149063 2bvfA 459 5.13e+01 2ztuA 260 5.16e+01 2h4tA 626 5.16e+01 1k3bA 119 5.16e+01 b.61.5.1 72016 3egeA 261 5.17e+01 2vzkA 173 5.20e+01 1v0aA 178 5.20e+01 b.18.1.30 119815 3kvoA 346 5.20e+01 1chuA 540 5.24e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 2v1rA 80 5.28e+01 b.34.2.1 152411 2fp3A 316 5.29e+01 2qulA 290 5.32e+01 2h7oA 303 5.33e+01 1axiA 191 5.38e+01 1huw a.26.1.1 16832 2pr7A 137 5.40e+01 3lduA 385 5.42e+01 1qwkA 317 5.48e+01 c.1.7.1 96482 1h2rL 534 5.49e+01 1h2rL e.18.1.1 43298 1mxsA 225 5.50e+01 c.1.10.1 91494 2rimA 457 5.50e+01 1uaeA 419 5.51e+01 d.68.2.2 39574 3gd5A 323 5.51e+01 1zy9A 564 5.52e+01 b.30.5.11,c.1.8.13 125813,125814 3a28A 258 5.54e+01 1t7pA 698 5.56e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1dwkA 156 5.56e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 3hahA 325 5.58e+01 1o4wA 147 5.58e+01 c.120.1.1 86629 1yixA 265 5.61e+01 c.1.9.12 123371 2h8fA 143 5.64e+01 a.1.1.2 136239 1vkjA 285 5.65e+01 c.37.1.5 108666 2a97A 439 5.66e+01 1wyuA 438 5.66e+01 c.67.1.7 121452 1k0fA 277 5.70e+01 c.92.2.2 71974 2zbvA 263 5.71e+01 3bosA 242 5.72e+01 2dkoA 146 5.74e+01 1yseA 141 5.77e+01 a.35.1.7 123970 3ed4A 502 5.82e+01 3kr6A 419 5.84e+01 1x1tA 260 5.90e+01 c.2.1.2 121597 3eayA 323 5.90e+01 1oe8A 211 5.91e+01 a.45.1.1,c.47.1.5 86905,86906 3hamA 299 5.91e+01 2opiA 212 5.96e+01 3eauA 327 5.99e+01 c.1.7.1 158080 2pnqA 467 5.99e+01 1gjwA 637 6.06e+01 b.71.1.1,c.1.8.1 60582,60583 2hp0A 466 6.07e+01 1bbzA 58 6.08e+01 1bbzA b.34.2.1 24477 1vmiA 355 6.09e+01 c.77.1.5 113678 2op6A 152 6.12e+01 2ev0A 142 6.14e+01 a.4.5.24,a.76.1.1 132413,132414 1y8qA 346 6.16e+01 3b2tA 311 6.21e+01 1lt8A 406 6.23e+01 c.1.26.1 78186 2ph3A 245 6.26e+01 2hpsA 186 6.28e+01 2o8bA 934 6.29e+01 1zroA 602 6.29e+01 a.264.1.1,a.264.1.1 125551,125552 1ydeA 270 6.32e+01 c.2.1.2 122980 1clc 639 6.34e+01 1clc 1clcA 639 6.34e+01 a.102.1.2,b.1.18.2 18835,21872 2agtA 319 6.35e+01 1amk 251 6.40e+01 1amk 1e1hA 287 6.42e+01 d.92.1.7 83167 1wxcB 134 6.49e+01 1bkrA 109 6.50e+01 1bkrA a.40.1.1 17394 2nwhA 317 6.55e+01 1h30A 422 6.64e+01 b.29.1.4,b.29.1.4 76604,76605 3euoA 379 6.65e+01 2cchB 260 6.70e+01 a.74.1.1,a.74.1.1 130237,130238 1mi3A 322 6.70e+01 c.1.7.1 91274 3lyxA 124 6.70e+01 1edg 380 6.71e+01 1edg 1edgA 380 6.71e+01 c.1.8.3 28807 2zfnA 460 6.74e+01 3h0gB 1210 6.76e+01 2zayA 147 6.79e+01 2gb3A 409 6.79e+01 c.67.1.1 134903 1c4xA 285 6.83e+01 1c4xA c.69.1.10 34684 1h4aX 173 6.87e+01 b.11.1.1,b.11.1.1 83479,83480 1tl2A 236 6.89e+01 1tl2A b.67.1.1 27541 1h3fA 432 6.90e+01 c.26.1.1,d.66.1.4 76631,76632 1thtA 305 6.91e+01 1thtA c.69.1.13 34711 1siqA 392 6.95e+01 a.29.3.1,e.6.1.1 105585,105586 3h7jA 243 6.97e+01 1jvsA 400 7.02e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1wa3A 205 7.02e+01 c.1.10.1 120802 2debA 653 7.03e+01 1ejdA 419 7.04e+01 1uae d.68.2.2 39576 1avaA 403 7.05e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1nv8A 284 7.06e+01 c.66.1.30 86224 3igsA 232 7.06e+01 3m7iA 635 7.09e+01 1fhuA 320 7.15e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1b0aA 288 7.17e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1q46A 175 7.17e+01 a.60.14.1,b.40.4.5 111594,111595 1avmA 201 7.19e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1jg8A 347 7.21e+01 1jg8A c.67.1.1 62946 1m6sA 347 7.21e+01 c.67.1.1 78701 1q8kA 308 7.22e+01 d.58.51.1,a.60.14.1,b.40.4.5 104557,111596,111597 3go5A 285 7.24e+01 2qahA 303 7.25e+01 3loyA 633 7.31e+01 1drw 273 7.35e+01 1drw 1drwA 273 7.35e+01 c.2.1.3,d.81.1.3 30057,39972 2qi9C 249 7.38e+01 2efjA 384 7.41e+01 2ewfA 610 7.43e+01 1oe4A 247 7.44e+01 c.18.1.3 86895 3l84A 632 7.45e+01 1qsmA 152 7.48e+01 1qsmA d.108.1.1 40808 3iarA 367 7.62e+01 1bsmA 201 7.64e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 2oo3A 283 7.64e+01 c.66.1.59 148918 1geeA 261 7.72e+01 c.2.1.2 90509 3cskA 711 7.74e+01 1n55A 251 7.75e+01 c.1.1.1 80007 2vxnA 251 7.75e+01 2f76X 100 7.79e+01 a.61.1.3 133085 3hnoA 419 7.80e+01 3moyA 263 7.82e+01 3lthA 419 7.86e+01 1exbA 332 7.92e+01 1qrqA c.1.7.1 28666 3c46A 1117 7.92e+01 1xl7A 612 7.93e+01 c.43.1.3,c.43.1.3 115438,115439 1gcoA 261 7.95e+01 1ybvA c.2.1.2 29884 2ajrA 331 7.97e+01 c.72.1.1 126892