# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1kl9A 182 1.08e-01 1dq3A 454 1.73e-01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1agdA 276 2.28e-01 1agdA b.1.1.2 20741 d.19.1.1 38260 1inp 400 2.71e-01 1inp e.7.1.1 42972 1lj5A 379 2.85e-01 1a7cA 379 3.00e-01 1sek e.1.1.1 42660 1cz4A 185 6.21e-01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1jl2A 156 6.86e-01 c.55.3.1 66822 1fo0A 116 7.02e-01 1tvdA b.1.1.1 20610 6prcH 258 8.02e-01 6prcH b.41.1.1 25457 f.2.1.2 43436 1ez1A 392 8.32e-01 1ez1A b.84.2.1 28248 c.30.1.1 31655 d.142.1.2 41500 1dxrH 258 9.27e-01 6prcH b.41.1.1 25456 f.2.1.2 43433 1eyzA 392 9.36e-01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1pszA 303 1.08e+00 1toaA c.92.2.2 35600 1blxA 326 1.12e+00 1hcl d.144.1.1 41596 1f15B 218 1.21e+00 1f15B b.10.1.2 23321 1mpgA 282 1.35e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 1i1qA 520 1.48e+00 1qdlA d.161.1.1 61543 1jr3E 334 1.66e+00 a.80.1.1 63253 c.37.1.13 63254 35c8H 217 1.74e+00 8fabA b.1.1.1 20297 b.1.1.2 21289 1swuA 127 1.78e+00 1swuA b.61.1.1 27230 1eyqA 222 1.80e+00 1eypA d.36.1.1 38534 1b24A 188 1.81e+00 1b24A d.95.2.1 40573 d.95.2.1 40574 1pcfA 66 2.31e+00 1pcfA d.18.1.1 38142 1io1A 398 2.56e+00 1io1A e.32.1.1 62611 1f06A 320 2.59e+00 1dapA c.2.1.3 59556 d.81.1.3 59557 1j8mF 297 2.63e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1cknA 330 2.69e+00 1ckmA b.40.4.6 25360 d.142.2.3 41587 1jnyA 435 2.70e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1hdmB 193 2.90e+00 1hdmB b.1.1.2 21584 d.19.1.1 38158 1jl3A 139 2.96e+00 c.44.1.1 66826 1jepA 222 3.34e+00 d.36.1.1 66612 1jmxA 494 3.43e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.1.6 66903 b.1.1.6 66904 b.61.4.1 66905 1epwA 1290 3.51e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1dapA 320 3.79e+00 1dapA c.2.1.3 30053 d.81.1.3 39968 1ja1A 622 3.80e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 2izhB 123 4.25e+00 1swuA b.61.1.1 27234 3dapA 320 4.29e+00 1dapA c.2.1.3 30051 d.81.1.3 39966 1g5pA 289 4.55e+00 1cp2A c.37.1.10 32253 1f15A 218 4.66e+00 1f15B b.10.1.2 23320 1ckmA 330 4.85e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1kzyC 259 4.93e+00 1bio 228 4.96e+00 5ptp b.47.1.2 26314 1kjqA 391 5.10e+00 1hsbA 270 5.13e+00 1agdA b.1.1.2 20736 d.19.1.1 38257 1csjA 531 5.19e+00 1quvA e.8.1.4 43120 3lynA 136 5.61e+00 1lis a.19.1.1 16413 1etu 394 5.65e+00 1efcA c.37.1.8 64737 1at3A 247 5.93e+00 1at3A b.57.1.1 27021 1ej0A 180 6.04e+00 1ej0A c.66.1.2 34179 1befA 181 6.10e+00 1befA b.47.1.3 26419 1qs2A 401 6.11e+00 1qs1A d.166.1.1 42268 d.166.1.1 42269 1a7tA 232 6.13e+00 1a7tA d.157.1.1 42041 1jb0E 75 6.24e+00 1pse b.34.4.2 62824 2izgB 123 6.48e+00 1swuA b.61.1.1 27236 1iq4A 179 7.12e+00 1iq4A d.77.1.1 62641 1qs1A 462 7.27e+00 1qs1A d.166.1.1 42260 d.166.1.1 42261 1bncB 449 7.36e+00 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1fgyA 127 7.91e+00 1faoA b.55.1.1 26976 1cuk 203 8.08e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1cfzA 162 8.17e+00 1cfzA c.56.1.1 33754 1eypA 222 8.19e+00 1eypA d.36.1.1 38536 1qhqA 140 8.31e+00 1qhqA b.6.1.1 63326 2rn2 155 8.47e+00 2rn2 c.55.3.1 33551 2pia 321 8.56e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1pytA 94 9.00e+00 1pytA d.58.3.1 39064 1fjgM 126 9.14e+00 1fjfM a.5.5.1 16293 1cmkE 350 9.20e+00 1cdkA d.144.1.1 41623 1g5cA 170 9.28e+00 1g5cA c.53.2.1 60264 1bncA 449 9.32e+00 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1kkhA 317 9.39e+00 1hi0P 664 1.02e+01 1hi0P e.8.1.6 61051 1fo8A 343 1.08e+01 1foaA c.68.1.10 59927 1fzaB 328 1.08e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1ex2A 189 1.11e+01 1ex2A c.51.4.2 33225 1sxl 97 1.17e+01 1b7fA d.58.7.1 39180 1k8wA 327 1.18e+01 d.58.35.2 68317 d.58.35.2 68318 1g7rA 594 1.19e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1avqA 228 1.19e+01 1avqA c.52.1.13 33326 1g4uS 383 1.20e+01 1g4uS a.24.11.1 16643 c.45.1.2 32691 2rmcA 182 1.21e+01 2cpl b.62.1.1 27491 1qlpA 394 1.21e+01 1ovaA e.1.1.1 42628 1g7tA 594 1.22e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1dv1A 449 1.24e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1hfoA 113 1.24e+01 d.80.1.3 61006 1hjp 203 1.24e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1mrg 263 1.24e+01 1mrj d.165.1.1 42183 2frvB 536 1.28e+01 1h2rL e.18.1.1 43291 1foaA 348 1.29e+01 1foaA c.68.1.10 59929 1bgc 174 1.30e+01 1bgc a.26.1.1 16822 1k0tA 80 1.33e+01 1g4wR 383 1.36e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1amoA 615 1.37e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1kit 757 1.38e+01 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1dcs 311 1.38e+01 1dcs b.82.2.1 28124 1kgsA 225 1.40e+01 a.4.6.1 68596 c.23.1.1 68597 9apiA 347 1.42e+01 1ovaA e.1.1.1 42630 1f21A 155 1.44e+01 2rn2 c.55.3.1 33550 1kid 203 1.45e+01 1derA c.8.5.1 30771 1jj2S 119 1.45e+01 1ffkQ b.34.5.1 63104 1wwcA 118 1.49e+01 1wwcA b.1.1.4 21778 1b1cA 181 1.54e+01 1amoA c.23.5.2 31212 1g7sA 594 1.55e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1gl4B 98 1.55e+01 b.1.1.4 65288 1gx5A 536 1.57e+01 2ebn 289 1.57e+01 2ebn c.1.8.5 28990 1ffk1 177 1.58e+01 1ffk1 1b8gA 429 1.65e+01 1b8gA c.67.1.4 34499 1f35A 162 1.65e+01 1f35A b.94.1.1 59628 1j9yA 385 1.68e+01 1j9yA c.1.8.3 62791 1auvA 311 1.68e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1hrhA 136 1.71e+01 1rthA c.55.3.1 33577 1ceqA 316 1.72e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1i3uA 127 1.74e+01 1gc1H b.1.1.1 61636 1arb 268 1.76e+01 1arb b.47.1.1 25766 1fsu 492 1.76e+01 1auk c.76.1.2 35032 1vid 221 1.76e+01 1vid c.66.1.1 34178 3aig 202 1.79e+01 1atlA d.92.1.9 40321 1crzA 403 1.80e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1f6yA 262 1.84e+01 1f6yA c.1.21.2 29673 1erjA 393 1.89e+01 1erjA b.69.4.1 27660 1cqmA 101 1.91e+01 1ris d.58.14.1 39321 1kq3A 376 1.91e+01 e.22.1.2 68790 2lbp 346 1.91e+01 2liv c.93.1.1 35709 1a2vA 655 1.92e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1b6cB 342 1.94e+01 1b6cB d.144.1.1 41673 2bc2A 227 1.95e+01 1a7tA d.157.1.1 42031 1ljoA 77 1.98e+01 1a0oD 134 2.05e+01 1eayC d.58.24.1 39391 1air 353 2.06e+01 1air b.80.1.1 28018 2pec 353 2.06e+01 1air b.80.1.1 28019 1g7pA 274 2.07e+01 1h4wA 224 2.10e+01 b.47.1.2 65622 1tdj 514 2.11e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1inlA 296 2.13e+01 c.66.1.17 66220 1qhuA 460 2.17e+01 1qhuA b.66.1.1 27530 b.66.1.1 27531 1fzoA 274 2.18e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1nipA 289 2.20e+01 1cp2A c.37.1.10 32263 1a3yA 149 2.31e+01 1obpA b.60.1.1 27110 1mtnC 97 2.35e+01 5ptp 1fzkA 274 2.37e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1aqm 453 2.38e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1j7nA 776 2.40e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1chmA 401 2.42e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1louA 101 2.45e+01 1ris d.58.14.1 39323 1pfkA 320 2.47e+01 3pfk c.89.1.1 35575 1a3lH 218 2.49e+01 1mfa b.1.1.1 20241 b.1.1.2 21253 1jbeA 128 2.51e+01 3chy c.23.1.1 62845 1ezvB 352 2.53e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 1i1gA 141 2.55e+01 a.4.5.32 65982 d.58.37.1 65983 1hhsA 664 2.56e+01 1hi0P e.8.1.6 61045 1b93B 152 2.56e+01 1b93A c.24.1.2 31508 1jflA 228 2.58e+01 1gg6C 97 2.58e+01 5ptp 1ab9C 97 2.59e+01 5ptp 1mtyD 512 2.60e+01 1mhyD a.25.1.2 16742 1g94A 448 2.60e+01 b.71.1.1 65169 c.1.8.1 65170 2bc2B 227 2.60e+01 1a7tA d.157.1.1 42032 1cd9C 175 2.63e+01 1bgc a.26.1.1 16816 1ayl 541 2.73e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1ris 101 2.75e+01 1ris d.58.14.1 39314 1fvgA 199 2.77e+01 1fvaA d.58.28.1 39408 1ewjA 126 2.81e+01 1ecsA d.32.1.2 59526 1mlcB 218 2.82e+01 1igtB b.1.1.1 20053 b.1.1.2 21095 1lci 550 2.82e+01 1lci e.23.1.1 43349 1a5t 334 2.87e+01 1a5t a.80.1.1 18450 c.37.1.13 32423 1budA 197 2.89e+01 1atlA d.92.1.9 40328 1go3F 107 2.95e+01 a.60.8.2 65407 1ihrA 76 2.96e+01 1ihrA d.191.1.1 62392 1eq9A 222 3.01e+01 5ptp b.47.1.2 26068 1b93A 152 3.01e+01 1b93A c.24.1.2 31507 2pfkA 320 3.04e+01 3pfk c.89.1.1 35577 1lcyA 325 3.07e+01 1f1zA 273 3.08e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 3il8 72 3.10e+01 1tvxA d.9.1.1 37356 1dkgD 383 3.13e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1dzkA 157 3.17e+01 1obpA b.60.1.1 27096 1jofA 365 3.24e+01 6pfkA 319 3.26e+01 3pfk c.89.1.1 35583 1floA 422 3.26e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1h5bA 113 3.27e+01 1tvdA b.1.1.1 60638 1mctA 223 3.29e+01 5ptp b.47.1.2 25961 2hrvA 142 3.33e+01 2hrvA b.47.1.4 26429 1dymA 402 3.38e+01 1celA b.29.1.10 24304 1fp6A 289 3.47e+01 1cp2A c.37.1.10 32243 1aa6 715 3.49e+01 2napA b.52.2.2 26916 c.81.1.1 35324 1cqyA 99 3.50e+01 1b9zA b.3.1.1 22527 1ggxA 223 3.50e+01 1ggxA d.22.1.1 38367 2azaA 129 3.50e+01 1nwpA b.6.1.1 22901 1jl1A 155 3.53e+01 c.55.3.1 66821 1ulp 152 3.53e+01 1ulo b.18.1.6 23769 3rnt 104 3.57e+01 9rnt d.1.1.1 36069 1cjcA 460 3.60e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1cxwA 60 3.60e+01 g.14.1.2 44677 1qgiA 259 3.61e+01 1qgiA d.2.1.7 37001 1dd6A 228 3.62e+01 1a7tA d.157.1.1 42054 1e8xA 961 3.64e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1fc3A 120 3.70e+01 1fc3A a.4.6.3 16237 1i0vA 104 3.73e+01 9rnt d.1.1.1 36054 1f88A 348 3.75e+01 1f88A f.2.1.1 43429 1jj2E 177 3.77e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1igqA 62 3.85e+01 b.34.1.3 66130 9rnt 104 3.86e+01 9rnt d.1.1.1 36055 1nwpA 128 3.87e+01 1nwpA b.6.1.1 23011 1aizA 129 3.89e+01 1nwpA b.6.1.1 22903 1eudA 311 3.99e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1fjgQ 105 4.00e+01 1fjfQ b.40.4.5 25352 1bvoA 175 4.00e+01 1a3qA b.2.5.1 22457