# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1s5uA 138 1.23e-19 d.38.1.1 98573 2cyeA 133 2.55e-19 1njkA 156 4.99e-19 d.38.1.1 85818 2av9A 147 1.03e-18 1z54A 132 1.31e-18 2aliA 158 4.65e-16 1yliA 153 9.14e-15 1lo7A 141 2.75e-14 d.38.1.1 74144 1bvqA 141 3.72e-14 1bvqA d.38.1.1 38542 2gf6A 135 8.23e-14 1vpmA 169 3.56e-13 2essA 248 1.29e-12 2gvhA 288 2.09e-10 2h4uA 145 1.95e-09 1wluA 136 8.56e-08 1j1yA 136 9.58e-08 d.38.1.5 90776 2fs2A 151 1.55e-07 1psuA 140 1.55e-07 d.38.1.5 88285 1zkiA 133 4.13e-07 2b6eA 146 7.22e-06 1o0iA 138 1.07e-05 d.38.1.5 86532 1ixlA 131 1.09e-05 d.38.1.5 90717 2b3nA 159 1.35e-05 2cwzA 141 3.49e-05 1t82A 155 3.66e-05 d.38.1.5 106639 1q4uA 151 6.82e-05 d.38.1.5 95828 1u1zA 168 7.80e-05 d.38.1.6 107602 1sh8A 154 2.09e-04 d.38.1.5 105549 1vh5A 148 2.28e-04 d.38.1.5 100642 1iq6A 134 1.31e-03 d.38.1.4 76755 1c8uA 285 4.45e-03 1c8uA d.38.1.3,d.38.1.3 38547,38548 1yocA 147 5.41e-03 1z6bA 154 1.33e-02 2bdvA 231 9.68e-02 2bi0A 337 1.26e-01 1tbuA 118 3.28e-01 2fibA 269 6.00e-01 3fib d.171.1.1 42457 3fib 249 6.05e-01 3fib d.171.1.1 42455 1zxkA 98 1.05e+00 1mdc 133 1.97e+00 1hmt b.60.1.2 27198 2bm3A 166 2.25e+00 2as0A 396 2.38e+00 2bsjA 133 2.47e+00 2b59A 187 2.49e+00 1txqA 93 2.59e+00 1lla 628 2.74e+00 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1kt6A 183 2.99e+00 b.60.1.1 84466 2bshA 125 3.82e+00 1pkp 150 4.26e+00 1pkp d.14.1.1,d.50.1.2 37551,38787 1aqb 183 5.00e+00 1aqb b.60.1.1 27084 2eifA 136 5.63e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 2f4lA 297 5.89e+00 1g2aA 168 5.94e+00 d.167.1.1 65109 1jeoA 180 6.07e+00 c.80.1.3 66611 1xeoA 168 7.22e+00 1hbq 183 7.67e+00 1aqb b.60.1.1 27078 1lshA 1056 8.58e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1wxcB 134 9.04e+00 1dpjA 329 1.01e+01 1smrA b.50.1.2 26828 1bs4A 168 1.03e+01 1bs4A d.167.1.1 42287 1te5A 257 1.04e+01 d.153.1.1 106795 1hn0A 1021 1.05e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1u69A 163 1.14e+01 d.32.1.7 107699 1fm0D 81 1.19e+01 1fmaD d.15.3.1 37642 1xjvA 294 1.19e+01 1g7fA 298 1.25e+01 1pty c.45.1.2 60330 2bhoA 130 1.28e+01 1t4wA 196 1.34e+01 b.2.5.2 106427 1f3mA 80 1.35e+01 1f3mA j.66.1.1 46358 1tyjA 170 1.37e+01 1ytw 306 1.40e+01 1ytw c.45.1.2 32689 1ylxA 103 1.40e+01 2g1lA 104 1.41e+01 1m3sA 186 1.41e+01 c.80.1.3 78573 1ga6A 372 1.44e+01 1ga1A c.41.1.2 32556 1lyvA 306 1.46e+01 c.45.1.2 74348 1iicA 422 1.47e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1m3yA 413 1.54e+01 b.121.2.3,b.121.2.3 78579,78580 1pa1A 310 1.57e+01 c.45.1.2 94404 1zt1A 277 1.58e+01 1g7nA 131 1.65e+01 b.60.1.2 83274 1njhA 119 1.66e+01 b.128.1.1 85787 2f71A 298 1.67e+01 1ptvA 321 1.68e+01 1pty c.45.1.2 32665 1gotB 340 1.69e+01 1tbgA b.69.4.1 27648 1j1bA 420 1.69e+01 d.144.1.7 90758 1of5A 221 1.72e+01 d.17.4.2 86933 1vcaA 202 1.73e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1tc5A 194 1.76e+01 c.110.1.1 106752 2ae5B 528 1.82e+01 1oglA 283 1.85e+01 a.204.1.1 92922 1pn2A 280 1.86e+01 d.38.1.4,d.38.1.4 94930,94931 1b8aA 438 1.90e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1yemA 179 1.92e+01 1ywsA 82 2.00e+01 1gz8A 299 2.01e+01 d.144.1.7 83405 1ww7A 160 2.03e+01 1or0B 528 2.05e+01 2bcjB 340 2.06e+01 1lid 131 2.14e+01 1hmt b.60.1.2 27184 1xreA 217 2.25e+01 1yq2A 1024 2.32e+01 1jhfA 202 2.33e+01 a.4.5.2,b.87.1.1 63057,63058 1xc3A 302 2.36e+01 1w9aA 147 2.37e+01 1o6vA 466 2.39e+01 b.1.18.15,c.10.2.1 81099,81100 1vjzA 341 2.41e+01 c.1.8.3 100838 1fm2B 520 2.41e+01 1fm2B 1w66A 232 2.42e+01 1jyaA 130 2.45e+01 d.198.1.1 67453 1i2sA 282 2.46e+01 e.3.1.1 71104 1zboA 210 2.51e+01 1xxoA 147 2.57e+01 1y6hA 177 2.62e+01 1han 297 2.63e+01 1han d.32.1.3,d.32.1.3 38506,38507 1lkdA 297 2.63e+01 d.32.1.3,d.32.1.3 78059,78060 1w9hA 427 2.64e+01 1hcl 298 2.70e+01 1hcl d.144.1.7 41593 1g9mG 321 2.70e+01 1gc1G d.172.1.1 42492 2aq6A 147 2.74e+01 1rcqA 357 2.75e+01 b.49.2.2,c.1.6.1 104882,104883 2a0jA 149 2.82e+01 2aalA 131 2.90e+01 2db9A 149 2.92e+01 6paxA 133 2.96e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1qg7A 67 3.07e+01 1a15A d.9.1.1 37449 1vyfA 135 3.10e+01 b.60.1.2 108902 1g7sA 594 3.11e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1wk2A 121 3.32e+01 1yycA 174 3.34e+01 1w3fA 315 3.45e+01 1b65A 375 3.48e+01 1b65A d.154.1.1 42020 1a8i 842 3.54e+01 1a8i c.87.1.4 35490 1e25A 282 3.68e+01 1e25A e.3.1.1 42731 1bv1 159 3.73e+01 1bv1 d.129.3.1 41313 1rzjG 321 3.79e+01 d.172.1.1 98200 1wmaA 276 3.81e+01 1nkgA 508 3.82e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2ar0A 541 3.83e+01 1qxyA 252 3.86e+01 d.127.1.1 96565 1aym3 238 3.87e+01 1aym3 1j09A 468 3.91e+01 a.97.1.1,c.26.1.1 77025,77026 1h3nA 878 3.94e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1bjwA 382 4.00e+01 1bjwA c.67.1.1 34349 2aieP 203 4.03e+01 2bc4A 211 4.07e+01 1prs 173 4.08e+01 1prs b.11.1.1,b.11.1.1 23625,23626 1f5mA 180 4.12e+01 1f5mB d.110.2.1 40895 1ifc 132 4.21e+01 b.60.1.2 27173 2auhB 59 4.29e+01 1lm6A 215 4.32e+01 d.167.1.1 84628 1r77A 103 4.42e+01 1rl4A 188 4.44e+01 d.167.1.1 97636 1mkaA 171 4.48e+01 1mkaA d.38.1.2 38543 1qftA 175 4.50e+01 1qftA b.60.1.1 27151 1m1lA 236 4.56e+01 d.260.1.1 91166 2fpnA 216 4.59e+01 1b5pA 385 4.64e+01 c.67.1.1 90403 1g72A 573 4.64e+01 4aahA b.70.1.1 27680 1ed8A 449 4.70e+01 1b8jA c.76.1.1 34988 1wkbA 810 4.70e+01 1zt7A 276 4.76e+01 1jbeA 128 4.77e+01 3chy c.23.1.1 62845 1wznA 252 4.86e+01 1zhxA 438 4.89e+01 2cw9A 194 4.91e+01 1sheA 103 4.94e+01 d.274.1.1 105551 1fm4A 159 4.98e+01 1bv1 d.129.3.1 76186 1q3iA 214 4.98e+01 d.220.1.1 104524 1xmrA 243 5.04e+01 1tf4A 605 5.13e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 2bwqA 129 5.14e+01 3chy 128 5.21e+01 3chy c.23.1.1 31038 1bdo 80 5.22e+01 1bdo b.84.1.1 28214 2gtqA 867 5.27e+01 1vprA 374 5.33e+01 1iujA 106 5.38e+01 d.58.4.5 90701 2ajgA 196 5.46e+01 1j6oA 268 5.53e+01 c.1.9.12 77088 1mup 166 5.56e+01 1mup b.60.1.1 27133 2booA 247 5.59e+01 1n67A 359 5.66e+01 b.2.3.4,b.2.3.4 85354,85355 1zndA 174 5.71e+01 1kzfA 230 5.72e+01 d.108.1.3 73354 3pmgA 561 5.77e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1gln 468 5.80e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1k78A 149 5.82e+01 a.4.1.5,a.4.1.5 68255,68256 1je6A 275 5.93e+01 b.1.1.2,d.19.1.1 71638,71639 1jv4A 162 5.94e+01 b.60.1.1 67343 1mk4A 157 5.98e+01 d.108.1.1 84979 1n4xH 120 5.98e+01 b.1.1.1 85324 1k32A 1045 6.01e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1n0wA 243 6.02e+01 c.37.1.11 79772 1g5hA 454 6.05e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1i05A 180 6.05e+01 1mup b.60.1.1 27130 1i06A 180 6.06e+01 1mup b.60.1.1 27131 1l0wA 580 6.10e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1m4iA 181 6.10e+01 d.108.1.1 74457 1akz 223 6.14e+01 3eugA c.18.1.1 31007 1djxB 624 6.14e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1djxA 624 6.26e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1jhdA 396 6.39e+01 b.122.1.3,c.26.1.5 66712,66713 2mspA 126 6.43e+01 1mspA b.1.11.2 22335 1k3eA 156 6.57e+01 d.198.1.1 68103 1g38A 393 6.57e+01 2admA c.66.1.27 60235 1lfo 128 6.65e+01 1hmt b.60.1.2 27223 1yopA 83 6.69e+01 1su4A 994 6.75e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1qd6C 240 6.76e+01 1qd5A 1ig8A 486 6.81e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1u04A 771 6.82e+01 b.34.14.1,c.55.3.10 107539,107540 1jsdA 319 6.83e+01 b.19.1.2 63258 1j05B 121 6.89e+01 b.1.1.1 90736 1h5uA 842 6.90e+01 1a8i c.87.1.4 60655 1c0pA 363 6.97e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1j5uA 136 7.01e+01 d.208.1.1 71584 1qy1A 174 7.03e+01 b.60.1.1 96568 2c8mA 262 7.05e+01 1nzjA 298 7.09e+01 c.26.1.1 92377 1y6vA 449 7.13e+01 1h6uA 308 7.17e+01 b.1.18.15,c.10.2.1 65688,65689 1oo0A 147 7.20e+01 d.232.1.1 87182 1mbyA 88 7.21e+01 d.223.1.1 78931 2f96A 224 7.22e+01 1vzyA 291 7.29e+01 1mo7A 213 7.31e+01 d.220.1.1 85028 1xn8A 131 7.32e+01 2gnrA 145 7.38e+01 4blmA 265 7.44e+01 1btl e.3.1.1 42721 1forL 210 7.53e+01 8fabA b.1.1.1,b.1.1.2 19988,21044 1iqzA 81 7.53e+01 d.58.1.4 66281 1vr4A 103 7.55e+01 1owfB 94 7.65e+01 a.55.1.1 87488 1nxuA 333 7.68e+01 c.122.1.1 86389 1ga3A 113 7.73e+01 1ga3A a.26.1.2 60411 1i40A 175 7.74e+01 b.40.5.1 66024 1oaqH 121 7.85e+01 b.1.1.1 92707 1hjrA 158 7.89e+01 1hjrA c.55.3.6 33727 1xgsA 295 7.89e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1xn5A 146 7.91e+01 1iam 185 7.98e+01 1zxq b.1.1.3,b.1.1.4 21653,21689 1koqA 253 8.03e+01 2cba b.74.1.1 27964 2fdiA 211 8.11e+01 1u53A 196 8.16e+01 2arsA 262 8.23e+01 1udxA 416 8.27e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1syyA 346 8.29e+01 a.25.1.2 106126 1bxoA 323 8.34e+01 2er7E b.50.1.2 26805 1zvnA 99 8.40e+01 1pcfA 66 8.48e+01 1pcfA d.18.1.1 38142 1vq0A 302 8.54e+01 2a1vA 144 8.54e+01 1kopA 223 8.59e+01 2cba b.74.1.1 27966 1vkpA 383 8.64e+01 d.126.1.6 108686 2a90A 240 8.81e+01 1omhA 293 8.93e+01 d.89.1.5 93348 2aboA 136 8.99e+01 1i50A 1733 9.00e+01 e.29.1.2 61754