# 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.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 2av9A 147 4.76e-17 2cyeA 133 5.81e-17 1s5uA 138 6.63e-17 d.38.1.1 98573 1z54A 132 1.89e-16 1njkA 156 3.28e-16 d.38.1.1 85818 2aliA 158 1.99e-14 2gf6A 135 6.03e-13 1yliA 153 7.04e-13 1lo7A 141 1.24e-12 d.38.1.1 74144 1bvqA 141 1.48e-12 1bvqA d.38.1.1 38542 1vpmA 169 5.86e-12 2essA 248 1.48e-11 2h4uA 145 5.22e-09 2gvhA 288 5.32e-09 1wluA 136 2.52e-07 2fs2A 151 3.06e-07 1j1yA 136 6.62e-07 d.38.1.5 90776 1psuA 140 9.49e-07 d.38.1.5 88285 1zkiA 133 1.38e-06 1ixlA 131 1.26e-05 d.38.1.5 90717 1o0iA 138 3.78e-05 d.38.1.5 86532 1q4uA 151 4.06e-05 d.38.1.5 95828 2b3nA 159 5.34e-05 1u1zA 168 6.35e-05 d.38.1.6 107602 2b6eA 146 8.53e-05 2cwzA 141 1.19e-04 1sh8A 154 2.76e-04 d.38.1.5 105549 1t82A 155 3.28e-04 d.38.1.5 106639 1vh5A 148 5.82e-04 d.38.1.5 100642 1iq6A 134 2.75e-03 d.38.1.4 76755 1z6bA 154 3.28e-03 1yocA 147 5.12e-03 1c8uA 285 1.17e-02 1c8uA d.38.1.3,d.38.1.3 38547,38548 2bdvA 231 9.68e-02 2bi0A 337 1.37e-01 1txqA 93 1.08e+00 1mdc 133 1.25e+00 1hmt b.60.1.2 27198 1tbuA 118 1.44e+00 2b59A 187 1.57e+00 2bm3A 166 1.71e+00 1hn0A 1021 1.72e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1ylxA 103 3.10e+00 1kt6A 183 3.28e+00 b.60.1.1 84466 1iicA 422 3.39e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1oglA 283 3.53e+00 a.204.1.1 92922 1hbq 183 4.31e+00 1aqb b.60.1.1 27078 1aqb 183 4.83e+00 1aqb b.60.1.1 27084 2bsjA 133 5.19e+00 3fib 249 6.03e+00 3fib d.171.1.1 42455 1gz8A 299 7.05e+00 d.144.1.7 83405 2as0A 396 7.13e+00 2f71A 298 7.32e+00 1c0pA 363 8.13e+00 1an9A c.4.1.2,d.16.1.3 30647,37934 1kzfA 230 8.15e+00 d.108.1.3 73354 1w66A 232 8.17e+00 2fibA 269 8.90e+00 3fib d.171.1.1 42457 1tyjA 170 9.35e+00 1pkp 150 9.38e+00 1pkp d.14.1.1,d.50.1.2 37551,38787 1pn2A 280 9.40e+00 d.38.1.4,d.38.1.4 94930,94931 1ww7A 160 9.55e+00 1xc3A 302 9.64e+00 1ptvA 321 1.04e+01 1pty c.45.1.2 32665 1yq2A 1024 1.05e+01 1aym3 238 1.14e+01 1aym3 1te5A 257 1.22e+01 d.153.1.1 106795 1erjA 393 1.24e+01 1erjA b.69.4.1 27660 2bshA 125 1.30e+01 1mkaA 171 1.31e+01 1mkaA d.38.1.2 38543 1y8qA 346 1.33e+01 1lla 628 1.34e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1i2sA 282 1.39e+01 e.3.1.1 71104 1xjvA 294 1.41e+01 1j05B 121 1.43e+01 b.1.1.1 90736 2eifA 136 1.47e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1g7fA 298 1.50e+01 1pty c.45.1.2 60330 1ga6A 372 1.54e+01 1ga1A c.41.1.2 32556 2f4lA 297 1.55e+01 1jyaA 130 1.55e+01 d.198.1.1 67453 3pmgA 561 1.56e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1zxkA 98 1.56e+01 1b8aA 438 1.64e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1n67A 359 1.67e+01 b.2.3.4,b.2.3.4 85354,85355 1jv4A 162 1.74e+01 b.60.1.1 67343 1f5mA 180 1.74e+01 1f5mB d.110.2.1 40895 1nb5I 98 1.78e+01 d.17.1.2 80381 1yycA 174 1.80e+01 2g1lA 104 1.81e+01 1w3fA 315 1.81e+01 1zndA 174 1.82e+01 1yemA 179 1.85e+01 2bc4A 211 1.85e+01 1qy1A 174 1.86e+01 b.60.1.1 96568 1tc5A 194 1.87e+01 c.110.1.1 106752 1oaqH 121 1.89e+01 b.1.1.1 92707 1ytw 306 1.95e+01 1ytw c.45.1.2 32689 1njhA 119 1.96e+01 b.128.1.1 85787 1mup 166 1.97e+01 1mup b.60.1.1 27133 1gln 468 1.98e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1i05A 180 1.99e+01 1mup b.60.1.1 27130 1i06A 180 2.00e+01 1mup b.60.1.1 27131 1go4A 205 2.00e+01 d.135.1.1 70292 1j1bA 420 2.00e+01 d.144.1.7 90758 1jeoA 180 2.04e+01 c.80.1.3 66611 2cu3A 64 2.05e+01 1tuaA 191 2.05e+01 d.51.1.1,d.51.1.1 107321,107322 1a6wH 120 2.06e+01 1mfa b.1.1.1 20253 1bjwA 382 2.06e+01 1bjwA c.67.1.1 34349 1b5pA 385 2.11e+01 c.67.1.1 90403 1nzjA 298 2.22e+01 c.26.1.1 92377 1wxcB 134 2.26e+01 1lyvA 306 2.35e+01 c.45.1.2 74348 1vkjA 285 2.42e+01 c.37.1.5 108666 1of5A 221 2.42e+01 d.17.4.2 86933 1sxvA 172 2.43e+01 1n4xH 120 2.45e+01 b.1.1.1 85324 2db9A 149 2.45e+01 1o6vA 466 2.46e+01 b.1.18.15,c.10.2.1 81099,81100 1pa1A 310 2.50e+01 c.45.1.2 94404 1e25A 282 2.52e+01 1e25A e.3.1.1 42731 1l0wA 580 2.57e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1g2aA 168 2.59e+01 d.167.1.1 65109 1tlyA 278 2.65e+01 f.4.6.1 107143 1tzaA 134 2.65e+01 b.1.23.1 107468 2b49A 287 2.65e+01 1te2A 226 2.67e+01 c.108.1.6 106792 1iznA 286 2.70e+01 e.43.1.1 83847 4blmA 265 2.73e+01 1btl e.3.1.1 42721 1tzzA 392 2.77e+01 1lid 131 2.78e+01 1hmt b.60.1.2 27184 2ae5B 528 2.81e+01 1mq8A 291 2.83e+01 b.1.1.3,b.1.1.4 79405,79406 1xs0A 136 2.85e+01 1mk4A 157 2.87e+01 d.108.1.1 84979 1wznA 252 2.94e+01 1lfo 128 3.13e+01 1hmt b.60.1.2 27223 1hcl 298 3.16e+01 1hcl d.144.1.7 41593 1vcaA 202 3.19e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1qg7A 67 3.24e+01 1a15A d.9.1.1 37449 1esxA 96 3.27e+01 1esxA j.11.1.1 59501 1w9hA 427 3.28e+01 1t3tA 1303 3.29e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1iqzA 81 3.29e+01 d.58.1.4 66281 1hr0W 71 3.35e+01 1ah9 b.40.4.5 25329 2bcjB 340 3.36e+01 1mbyA 88 3.39e+01 d.223.1.1 78931 1akz 223 3.44e+01 3eugA c.18.1.1 31007 2fdiA 211 3.52e+01 1zt1A 277 3.53e+01 1g72A 573 3.61e+01 4aahA b.70.1.1 27680 2cw9A 194 3.63e+01 1vprA 374 3.65e+01 1zboA 210 3.71e+01 1vzyA 291 3.73e+01 1fm2B 520 3.73e+01 1fm2B 1a8i 842 3.74e+01 1a8i c.87.1.4 35490 1noa 113 3.79e+01 2mcm b.1.7.1 22208 2booA 247 3.82e+01 1jzuA 157 3.82e+01 b.60.1.1 84271 2bhoA 130 3.87e+01 1wkbA 810 3.89e+01 1g7nA 131 3.90e+01 b.60.1.2 83274 1dqeA 137 3.95e+01 1dqeA a.39.2.1 17388 1j09A 468 4.00e+01 a.97.1.1,c.26.1.1 77025,77026 3cox 507 4.01e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1rcqA 357 4.05e+01 b.49.2.2,c.1.6.1 104882,104883 1ywsA 82 4.10e+01 2h3jA 75 4.15e+01 1jhfA 202 4.15e+01 a.4.5.2,b.87.1.1 63057,63058 1m3yA 413 4.18e+01 b.121.2.3,b.121.2.3 78579,78580 1dpjA 329 4.24e+01 1smrA b.50.1.2 26828 1h6uA 308 4.24e+01 b.1.18.15,c.10.2.1 65688,65689 2a0jA 149 4.38e+01 1lshA 1056 4.38e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1t4wA 196 4.39e+01 b.2.5.2 106427 1wmaA 276 4.49e+01 1vjzA 341 4.49e+01 c.1.8.3 100838 1mo7A 213 4.54e+01 d.220.1.1 85028 1k78A 149 4.62e+01 a.4.1.5,a.4.1.5 68255,68256 6paxA 133 4.62e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1r77A 103 4.63e+01 1wk2A 121 4.70e+01 2fr2A 172 4.73e+01 1forL 210 4.74e+01 8fabA b.1.1.1,b.1.1.2 19988,21044 1ctn 540 4.78e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 2a90A 240 4.82e+01 1qusA 322 4.83e+01 1ltm d.2.1.6 36991 1nlbH 218 4.85e+01 b.1.1.1,b.1.1.2 80621,80622 1bs0A 384 4.88e+01 1bs0A c.67.1.4 34490 1v93A 296 4.89e+01 c.1.23.1 100532 1fm0D 81 4.99e+01 1fmaD d.15.3.1 37642 1ig8A 486 5.00e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1exrA 148 5.03e+01 1cll a.39.1.5 17299 1m3sA 186 5.06e+01 c.80.1.3 78573 1m5yA 408 5.09e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1qftA 175 5.09e+01 1qftA b.60.1.1 27151 1zhxA 438 5.16e+01 1hkfA 122 5.21e+01 b.1.1.1 83553 1gqeA 365 5.21e+01 e.38.1.1 70351 1q33A 292 5.22e+01 d.113.1.1 95657 1mvuB 121 5.27e+01 b.1.1.1 91475 1bv1 159 5.29e+01 1bv1 d.129.3.1 41313 1n0wB 35 5.43e+01 j.97.1.1 79773 1xgsA 295 5.49e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1xreA 217 5.55e+01 1b7yA 350 5.59e+01 1pysA d.104.1.1 40776 1zt7A 276 5.63e+01 1zo0A 126 5.65e+01 1m4iA 181 5.69e+01 d.108.1.1 74457 1edqA 540 5.75e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1bs4A 168 5.77e+01 1bs4A d.167.1.1 42287 1xeoA 168 5.78e+01 2prd 174 5.81e+01 2prd b.40.5.1 25435 1yqgA 263 5.82e+01 1n0wA 243 5.83e+01 c.37.1.11 79772 1m1lA 236 5.83e+01 d.260.1.1 91166 1cbs 137 5.91e+01 1hmt b.60.1.2 27201 1rwhA 757 5.97e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1m98A 317 6.00e+01 a.175.1.1,d.17.4.6 78866,78867 1ux6A 350 6.03e+01 b.29.1.16,g.75.1.1 100145,100146 1koqA 253 6.04e+01 2cba b.74.1.1 27964 1w68A 390 6.14e+01 a.25.1.2 109216 1xn8A 131 6.16e+01 1g5hA 454 6.18e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1oo0A 147 6.32e+01 d.232.1.1 87182 3chy 128 6.35e+01 3chy c.23.1.1 31038 2shpA 525 6.37e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1xvxA 312 6.45e+01 1knwA 425 6.51e+01 b.49.2.3,c.1.6.1 90969,90970 1g38A 393 6.56e+01 2admA c.66.1.27 60235 1e1oA 504 6.56e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1vh4A 435 6.57e+01 b.80.6.1 100640 1u7kA 131 6.59e+01 1bdo 80 6.70e+01 1bdo b.84.1.1 28214 2bv4A 113 6.71e+01 1xgkA 352 6.78e+01 1vq0A 302 6.80e+01 2fpeA 62 6.83e+01 1bjx 110 6.84e+01 1bjx c.47.1.2 32774 1y6hA 177 6.89e+01 1qqcA 773 6.92e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1iam 185 6.93e+01 1zxq b.1.1.3,b.1.1.4 21653,21689 1i40A 175 6.93e+01 b.40.5.1 66024 1gotB 340 7.00e+01 1tbgA b.69.4.1 27648 1widA 130 7.05e+01 1q18A 332 7.05e+01 c.55.1.7,c.55.1.7 104470,104471 1ytaA 180 7.07e+01 1lylA 504 7.07e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1larA 575 7.24e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1kopA 223 7.29e+01 2cba b.74.1.1 27966 1b65A 375 7.29e+01 1b65A d.154.1.1 42020 2aieP 203 7.30e+01 1wvgA 359 7.30e+01 1sz2A 332 7.34e+01 1o4yA 288 7.37e+01 b.29.1.2 92473 1tf4A 605 7.38e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 2gfgA 193 7.40e+01 2a8lA 420 7.47e+01 2ar0A 541 7.50e+01 2a6cA 83 7.53e+01 2cvxA 888 7.64e+01 1ga3A 113 7.72e+01 1ga3A a.26.1.2 60411 1j5uA 136 7.77e+01 d.208.1.1 71584 1jbeA 128 7.79e+01 3chy c.23.1.1 62845 1f39A 101 7.88e+01 1umuA b.87.1.1 28386 1ztuA 341 7.92e+01 1v3yA 192 7.94e+01 1lkkA 105 7.95e+01 1lckA d.93.1.1 40412 1fm4A 159 8.03e+01 1bv1 d.129.3.1 76186 1xfrA 128 8.03e+01 1c5cH 215 8.10e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1yb3A 175 8.13e+01 1pmnA 364 8.18e+01 d.144.1.7 94907 2aboA 136 8.24e+01 2mcm 112 8.25e+01 2mcm b.1.7.1 22207 1riqA 465 8.25e+01 a.203.1.1,d.104.1.1 97516,97517 1ne8A 117 8.27e+01 b.34.6.2 80424 2c8mA 262 8.34e+01 1zdzA 302 8.34e+01 1k6xA 352 8.51e+01 c.2.1.2 68238 2aq6A 147 8.52e+01 1nxuA 333 8.57e+01 c.122.1.1 86389 1lm6A 215 8.59e+01 d.167.1.1 84628 1tqyA 424 8.59e+01 c.95.1.1,c.95.1.1 107245,107246 1pcfA 66 8.61e+01 1pcfA d.18.1.1 38142 1rl4A 188 8.65e+01 d.167.1.1 97636 1a2yA 107 8.68e+01 8fabA b.1.1.1 19926 1mvfA 135 8.69e+01 b.1.1.1 85141 1q15A 503 8.72e+01 c.26.2.1,d.153.1.1 95538,95539 1gqpA 221 8.82e+01 b.18.1.9 70372 1ws0A 156 8.95e+01 1jhnA 424 8.95e+01 b.104.1.1,b.29.1.12 66722,70060 1eg5A 384 8.96e+01 1ecxA c.67.1.3 34429 2f96A 224 8.97e+01