# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1llp 343 1.25e-01 1arv a.93.1.1 18578 2pth 193 1.27e-01 2pth c.56.3.1 33793 1dguA 183 1.83e-01 1dguA a.39.1.5 17333 2e2c 156 2.85e-01 1u9aA d.20.1.1 38336 1qpaA 345 3.91e-01 1arv a.93.1.1 18585 1iba 101 8.02e-01 1iba d.95.1.1 40567 1ivyA 452 9.75e-01 1ivyA c.69.1.5 34654 1c7sA 858 1.13e+00 1qba b.1.1.5 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1aisA 182 1.17e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1qba 858 1.27e+00 1qba b.1.1.5 21810 b.2.2.3 22406 c.1.8.6 29009 d.92.2.1 40408 4blmA 265 2.04e+00 1btl e.3.1.1 42721 1kk1A 410 2.05e+00 1b71A 191 2.41e+00 1ryt a.25.1.1 16647 g.41.5.1 45246 1rec 201 2.62e+00 1rec a.39.1.5 17326 1cot 129 2.64e+00 1ycc a.3.1.1 15899 1ryt 190 2.86e+00 1ryt a.25.1.1 16646 g.41.5.1 45245 1dvbA 191 2.87e+00 1ryt a.25.1.1 16645 g.41.5.1 45244 1jmsA 381 2.93e+00 a.60.6.1 66889 e.9.1.1 66890 1eg7A 557 3.42e+00 1eg7A c.37.1.10 32241 1cfr 285 3.54e+00 1cfr c.52.1.7 33312 1i7kA 179 3.76e+00 1u9aA d.20.1.1 61889 1fchA 368 3.76e+00 1fchA a.118.8.1 19212 1kqfB 294 3.84e+00 1i88A 389 3.95e+00 c.95.1.2 66070 c.95.1.2 66071 1cznA 169 4.03e+00 1rcf c.23.5.1 31181 1ofv 169 4.03e+00 1rcf c.23.5.1 31184 1eq2A 310 4.33e+00 1eq2A c.2.1.2 29814 1bzyA 217 4.35e+00 1qk3A c.61.1.1 34071 1jb0D 138 4.44e+00 1jb0D d.187.1.1 62823 1gc5A 467 4.57e+00 1gc5A c.72.1.3 60429 1ihoA 283 4.81e+00 1ihoA c.26.1.4 62390 1bykA 255 4.93e+00 1bykA c.93.1.1 35706 1qm4A 396 5.02e+00 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1fxlA 167 5.17e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1sfe 180 5.61e+00 1sfe a.4.2.1 16073 c.55.7.1 33748 1dusA 194 5.80e+00 1dusA c.66.1.4 34182 1jj2E 177 5.85e+00 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1ppo 216 6.30e+00 1cs8A d.3.1.1 37020 1ffk1 177 6.34e+00 1ffk1 1b7fA 168 6.56e+00 1b7fA d.58.7.1 39169 d.58.7.1 39170 1fpxA 352 6.63e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1f9zA 135 6.76e+00 1qipA d.32.1.1 38484 1qfxA 460 6.95e+00 1qfxA c.60.1.3 33994 1mai 131 7.58e+00 1mai b.55.1.1 26951 1qhhC 115 7.79e+00 1pjr 2hvm 273 8.62e+00 1cnv c.1.8.5 28985 1bax 94 8.64e+00 1bax a.61.1.3 18133 1jbeA 128 8.67e+00 3chy c.23.1.1 62845 1it2A 146 9.12e+00 a.1.1.2 66365 1tadA 324 9.18e+00 1cipA a.66.1.1 18194 c.37.1.8 32077 1tag 324 9.25e+00 1cipA a.66.1.1 18197 c.37.1.8 32080 1amp 291 1.03e+01 1amp c.56.5.4 33837 1gkuB 1054 1.07e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 3chy 128 1.10e+01 3chy c.23.1.1 31038 1dbfA 127 1.13e+01 2chsA d.79.1.2 39761 2chsA 127 1.13e+01 2chsA d.79.1.2 39764 1fa8A 135 1.14e+01 1qipA d.32.1.1 38486 2acr 315 1.14e+01 1frb c.1.7.1 28674 1h6qA 168 1.15e+01 1h6qA b.88.1.2 60692 1d6mA 653 1.17e+01 1d6mA e.10.1.1 43248 1ftrA 296 1.18e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1qhhA 167 1.18e+01 1pjr c.37.1.13 32393 1i1rB 181 1.18e+01 1i1rB a.26.1.1 61548 1f6bA 198 1.21e+01 c.37.1.8 64986 1mnd 762 1.24e+01 1lvk b.34.3.1 24591 c.37.1.9 32188 1lvk 762 1.25e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 6pfkA 319 1.29e+01 3pfk c.89.1.1 35583 1vom 762 1.30e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1jj2I 145 1.37e+01 1ffkG c.21.1.1 63094 1hmpA 217 1.37e+01 1qk3A c.61.1.1 34075 1i2sA 282 1.37e+01 1f7cA 231 1.39e+01 1f7cA a.116.1.1 19107 1eikA 77 1.41e+01 1eikA d.78.1.1 39751 1ads 315 1.43e+01 1frb c.1.7.1 28671 1hx0A 496 1.46e+01 b.71.1.1 61346 c.1.8.1 61347 1g71A 347 1.47e+01 1g71A e.16.1.1 43268 1pvaA 110 1.49e+01 1a75A a.39.1.4 17207 1ryp2 233 1.50e+01 1ryp2 1sxl 97 1.57e+01 1b7fA d.58.7.1 39180 1esmA 316 1.60e+01 1esmA c.37.1.6 31953 5pal 109 1.65e+01 1a75A a.39.1.4 17215 1poh 85 1.68e+01 1ptf d.94.1.1 40553 2gcc 70 1.75e+01 2gcc d.10.1.2 37484 1bksB 397 1.78e+01 2tysB c.79.1.1 35285 1fp2A 352 1.78e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1ji8A 111 1.82e+01 d.203.1.1 66733 1ubpB 122 1.83e+01 1ubpB b.85.3.1 28346 1fukA 165 1.88e+01 1fukA c.37.1.13 32409 1smd 496 1.88e+01 1smd b.71.1.1 27768 c.1.8.1 28755 4ubpB 126 1.94e+01 1ubpB b.85.3.1 28345 1e6mA 128 1.95e+01 3chy c.23.1.1 31039 1ii7A 333 1.95e+01 1ii7A d.159.1.4 62415 1mn1 357 1.99e+01 1arv a.93.1.1 18667 1cf7A 76 2.01e+01 1cf7B a.4.5.17 16151 1alq 266 2.02e+01 1btl e.3.1.1 42707 1qusA 322 2.15e+01 1ltm d.2.1.6 36991 2cxbA 124 2.18e+01 1ycc a.3.1.1 15891 1cxc 124 2.19e+01 1ycc a.3.1.1 15890 1qb2A 109 2.19e+01 1qb2A a.36.1.1 17125 1hi9A 274 2.21e+01 1hi9A c.99.1.1 61063 1go3F 107 2.24e+01 a.60.8.2 65407 1g59A 468 2.25e+01 a.97.1.1 60257 c.26.1.1 60258 4pfk 319 2.25e+01 3pfk c.89.1.1 35582 1jq3A 296 2.30e+01 c.66.1.17 67079 2leu 37 2.30e+01 2leu j.3.1.1 46068 1tlfA 301 2.32e+01 1tlfA c.93.1.1 35687 1inlA 296 2.39e+01 c.66.1.17 66220 1anv 356 2.44e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1lehA 364 2.46e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1jkeA 145 2.47e+01 c.110.1.1 66791 1i7dA 659 2.48e+01 1d6mA e.10.1.1 61886 1hr6B 443 2.49e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1pyiA 96 2.51e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 3pfk 319 2.55e+01 3pfk c.89.1.1 35581 1jc4A 148 2.62e+01 1jc4A d.32.1.4 62863 1gtqA 140 2.62e+01 1b66A d.96.1.2 40661 2dpmA 284 2.62e+01 2dpmA c.66.1.10 34246 1ej2A 181 2.63e+01 1f9aA c.26.1.3 59414 1qopB 396 2.68e+01 2tysB c.79.1.1 35270 1fjcA 96 2.68e+01 1fjcA d.58.7.1 39212 1mml 265 2.80e+01 1mml e.8.1.2 43015 1qagA 226 2.80e+01 1qagA a.40.1.1 17400 a.40.1.1 17401 1jrjA 39 2.82e+01 j.6.1.1 67135 1e1oA 504 2.85e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 2sas 185 2.88e+01 2sas a.39.1.5 17258 1i6pA 220 2.88e+01 1ddzA c.53.2.1 61848 1opd 85 2.90e+01 1ptf d.94.1.1 40560 1ltm 320 2.90e+01 1ltm d.2.1.6 36992 1d0yA 761 2.92e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 3blm 257 3.07e+01 1btl e.3.1.1 42709 1dk8A 147 3.15e+01 1agrE a.91.1.1 18548 1ea5A 537 3.17e+01 2bce c.69.1.1 34592 1e85A 127 3.17e+01 1bbhA a.24.3.2 16549 2rgf 97 3.21e+01 1lfdA d.15.1.5 37627 1ax4A 467 3.22e+01 1ax4A c.67.1.2 34391 1innA 166 3.28e+01 1j98A d.185.1.2 62608 1qqgA 264 3.30e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 2oatA 439 3.32e+01 2dkb c.67.1.4 34452 1cqzA 554 3.36e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1a3aA 148 3.48e+01 1a3aA d.112.1.1 40917 1hy5A 136 3.51e+01 a.24.11.1 65955 2viuB 175 3.54e+01 1hgeB h.3.1.1 45676 1pioA 257 3.56e+01 1btl e.3.1.1 42719 3hmgB 175 3.57e+01 1hgeB h.3.1.1 45704 1ddgA 374 3.59e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 3cln 148 3.60e+01 1cll a.39.1.5 17286 1jjoC 261 3.63e+01 1imuA 107 3.64e+01 d.204.1.1 66218 1jjyA 636 3.64e+01 1jjyA e.26.1.2 63141 1hgeB 175 3.65e+01 1hgeB h.3.1.1 45680 1a3aC 148 3.66e+01 1a3aA d.112.1.1 40919 2fmr 65 3.67e+01 2fmr d.51.1.1 38808 1bebA 162 3.68e+01 1bebA b.60.1.1 27115 1jyeA 349 3.68e+01 c.93.1.1 67455 3crd 100 3.70e+01 3crd a.77.1.1 18429 1cy9A 264 3.71e+01 1ecl e.10.1.1 43236 1apj 74 3.73e+01 1apj g.23.1.1 44899 2tysB 397 3.80e+01 2tysB c.79.1.1 35272 1pjr 724 3.82e+01 1pjr c.37.1.13 32391 c.37.1.13 32392 1a0p 290 3.82e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1scmB 145 3.84e+01 1wdcB a.39.1.5 17304 1kkhA 317 3.88e+01 1mpyA 307 3.93e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509