# 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 2cyeA 133 2.34e-17 1s5uA 138 5.32e-17 d.38.1.1 98573 1njkA 156 2.47e-16 d.38.1.1 85818 2av9A 147 2.69e-16 1z54A 132 3.21e-16 2aliA 158 1.68e-14 1yliA 153 6.74e-14 1vpmA 169 4.97e-13 2gf6A 135 1.82e-12 1lo7A 141 4.76e-12 d.38.1.1 74144 1bvqA 141 4.98e-12 1bvqA d.38.1.1 38542 2essA 248 6.44e-11 2gvhA 288 1.86e-10 2h4uA 145 8.57e-09 1zkiA 133 1.07e-07 1wluA 136 1.43e-07 1j1yA 136 1.52e-07 d.38.1.5 90776 2fs2A 151 4.41e-07 1psuA 140 4.70e-07 d.38.1.5 88285 1u1zA 168 5.54e-07 d.38.1.6 107602 2b6eA 146 1.00e-06 1o0iA 138 1.18e-06 d.38.1.5 86532 2b3nA 159 4.25e-06 1ixlA 131 1.03e-05 d.38.1.5 90717 1t82A 155 3.13e-05 d.38.1.5 106639 2cwzA 141 3.40e-05 1vh5A 148 5.17e-05 d.38.1.5 100642 1z6bA 154 5.84e-05 1q4uA 151 7.46e-05 d.38.1.5 95828 1c8uA 285 1.87e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 1iq6A 134 2.57e-04 d.38.1.4 76755 1sh8A 154 3.52e-04 d.38.1.5 105549 1yocA 147 7.00e-04 1tbuA 118 3.50e-02 2bi0A 337 3.56e-02 2bdvA 231 1.17e+00 1zxkA 98 1.37e+00 2bc4A 211 1.39e+00 1te5A 257 1.68e+00 d.153.1.1 106795 1yycA 174 2.03e+00 2bm3A 166 2.14e+00 1gsoA 431 2.21e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 2b59A 187 2.33e+00 1mkaA 171 2.94e+00 1mkaA d.38.1.2 38543 1pkp 150 3.14e+00 1pkp d.14.1.1,d.50.1.2 37551,38787 2f4lA 297 3.19e+00 1txqA 93 3.91e+00 2eifA 136 3.93e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 1jeoA 180 4.64e+00 c.80.1.3 66611 1m3sA 186 4.65e+00 c.80.1.3 78573 1tf4A 605 4.65e+00 1tf4A a.102.1.2,b.2.2.2 18827,22393 2fibA 269 5.45e+00 3fib d.171.1.1 42457 3fib 249 5.57e+00 3fib d.171.1.1 42455 1k32A 1045 5.87e+00 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1y6hA 177 6.09e+00 1gotB 340 6.72e+00 1tbgA b.69.4.1 27648 2bcjB 340 6.97e+00 1kzfA 230 6.97e+00 d.108.1.3 73354 1pn2A 280 7.31e+00 d.38.1.4,d.38.1.4 94930,94931 1zt1A 277 8.04e+00 1iicA 422 9.36e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1zt7A 276 9.57e+00 2aalA 131 9.79e+00 1cwvA 492 9.96e+00 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1gz8A 299 1.12e+01 d.144.1.7 83405 1fm0D 81 1.16e+01 1fmaD d.15.3.1 37642 1t4wA 196 1.18e+01 b.2.5.2 106427 1wxcB 134 1.18e+01 1j1bA 420 1.19e+01 d.144.1.7 90758 1jhfA 202 1.21e+01 a.4.5.2,b.87.1.1 63057,63058 1vrmA 325 1.21e+01 1dnlA 199 1.22e+01 1ci0A b.45.1.1 25753 1zxfA 155 1.40e+01 1hbq 183 1.45e+01 1aqb b.60.1.1 27078 1dpjA 329 1.48e+01 1smrA b.50.1.2 26828 1lla 628 1.49e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 2as0A 396 1.61e+01 1g79A 218 1.62e+01 1ci0A b.45.1.1 25752 1jyaA 130 1.64e+01 d.198.1.1 67453 1mbyA 88 1.67e+01 d.223.1.1 78931 1f3mA 80 1.70e+01 1f3mA j.66.1.1 46358 1or0B 528 1.74e+01 1hcl 298 1.96e+01 1hcl d.144.1.7 41593 1ga6A 372 1.99e+01 1ga1A c.41.1.2 32556 1xeuA 263 1.99e+01 1g87A 614 2.00e+01 a.102.1.2,b.2.2.2 83275,83276 1j09A 468 2.02e+01 a.97.1.1,c.26.1.1 77025,77026 1u69A 163 2.05e+01 d.32.1.7 107699 1n67A 359 2.08e+01 b.2.3.4,b.2.3.4 85354,85355 2f4nA 273 2.09e+01 1hdmA 201 2.11e+01 1iakA b.1.1.2,d.19.1.1 21583,38157 1vcaA 202 2.12e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 2cw9A 194 2.14e+01 3pmgA 561 2.15e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2fi9A 128 2.15e+01 1vjzA 341 2.26e+01 c.1.8.3 100838 1kt6A 183 2.26e+01 b.60.1.1 84466 2f96A 224 2.47e+01 1ywsA 82 2.49e+01 1lid 131 2.56e+01 1hmt b.60.1.2 27184 2ae5B 528 2.57e+01 1rl4A 188 2.57e+01 d.167.1.1 97636 1nkgA 508 2.59e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1f39A 101 2.72e+01 1umuA b.87.1.1 28386 1prs 173 2.73e+01 1prs b.11.1.1,b.11.1.1 23625,23626 1w3fA 315 2.80e+01 2g1lA 104 2.87e+01 1aym3 238 2.90e+01 1aym3 1xi1A 575 3.02e+01 1g7nA 131 3.07e+01 b.60.1.2 83274 1vyfA 135 3.08e+01 b.60.1.2 108902 2gtqA 867 3.09e+01 1j9lA 247 3.11e+01 c.106.1.1 62762 1zboA 210 3.12e+01 1xeoA 168 3.19e+01 1oglA 283 3.20e+01 a.204.1.1 92922 1lshA 1056 3.23e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1esxA 96 3.23e+01 1esxA j.11.1.1 59501 1qg7A 67 3.29e+01 1a15A d.9.1.1 37449 1l0wA 580 3.33e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1ylxA 103 3.37e+01 1vavA 222 3.40e+01 b.29.1.18 108472 1xc3A 302 3.41e+01 1tc5A 194 3.43e+01 c.110.1.1 106752 1bs4A 168 3.44e+01 1bs4A d.167.1.1 42287 1tyjA 170 3.44e+01 1q8rA 120 3.47e+01 d.79.6.1 96225 1w9hA 427 3.54e+01 1g2aA 168 3.58e+01 d.167.1.1 65109 1fm2B 520 3.65e+01 1fm2B 1g9mG 321 3.78e+01 1gc1G d.172.1.1 42492 1qxyA 252 3.81e+01 d.127.1.1 96565 1g72A 573 4.03e+01 4aahA b.70.1.1 27680 1opy 131 4.05e+01 1opy d.17.4.3 38113 1a4yB 123 4.07e+01 7rsa d.5.1.1 37296 1wcdJ 441 4.26e+01 1rxxA 421 4.28e+01 d.126.1.4 98061 1dmmA 131 4.33e+01 1opy d.17.4.3 38114 1j6oA 268 4.43e+01 c.1.9.12 77088 1z7aA 308 4.43e+01 1b65A 375 4.45e+01 1b65A d.154.1.1 42020 2a11A 242 4.47e+01 1mp1A 111 4.47e+01 a.188.1.1 91382 2bsjA 133 4.56e+01 1yopA 83 4.64e+01 1o0wA 252 4.67e+01 a.149.1.1,d.50.1.1 80751,80752 1o6vA 466 4.70e+01 b.1.18.15,c.10.2.1 81099,81100 1m3yA 413 4.74e+01 b.121.2.3,b.121.2.3 78579,78580 1wznA 252 4.77e+01 1ww7A 160 4.83e+01 1pvc2 271 4.98e+01 1aym2 1j5wA 298 5.16e+01 d.104.1.1 71589 1wk2A 121 5.16e+01 1iujA 106 5.25e+01 d.58.4.5 90701 2b06A 155 5.25e+01 1nszA 347 5.29e+01 b.30.5.4 80724 1ssfA 156 5.30e+01 b.34.9.1,b.34.9.1 105982,105983 1rzjG 321 5.30e+01 d.172.1.1 98200 1w66A 232 5.40e+01 1on2A 142 5.43e+01 a.4.5.24,a.76.1.1 87103,87104 1m1lA 236 5.44e+01 d.260.1.1 91166 2bt9A 90 5.44e+01 1jv2A 957 5.49e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1yg9A 330 5.57e+01 1gln 468 5.60e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1dqeA 137 5.66e+01 1dqeA a.39.2.1 17388 1g7fA 298 5.67e+01 1pty c.45.1.2 60330 2bwqA 129 5.67e+01 2mspA 126 5.73e+01 1mspA b.1.11.2 22335 1ggzA 148 5.76e+01 a.39.1.5 70176 1z9fA 153 5.88e+01 1mq8A 291 5.89e+01 b.1.1.3,b.1.1.4 79405,79406 1oh0A 131 5.95e+01 d.17.4.3 87004 1f5mA 180 6.00e+01 1f5mB d.110.2.1 40895 1mw9X 592 6.02e+01 e.10.1.1 91480 1zhxA 438 6.04e+01 1bv1 159 6.06e+01 1bv1 d.129.3.1 41313 1zyoA 191 6.20e+01 1ounA 127 6.25e+01 1ounA d.17.4.2 38090 1bxoA 323 6.32e+01 2er7E b.50.1.2 26805 1djxB 624 6.36e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1v3yA 192 6.37e+01 1djxA 624 6.41e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1w9yA 319 6.46e+01 2bshA 125 6.58e+01 1xfrA 128 6.59e+01 1pcfA 66 6.59e+01 1pcfA d.18.1.1 38142 1yewA 382 6.61e+01 1ifc 132 6.66e+01 b.60.1.2 27173 1ed8A 449 6.71e+01 1b8jA c.76.1.1 34988 2fpnA 216 6.80e+01 1sx5A 244 6.81e+01 c.52.1.2 99023 1aqb 183 6.86e+01 1aqb b.60.1.1 27084 2h3jA 75 6.90e+01 1rz1A 161 6.91e+01 b.45.1.2 98124 2aaa 484 6.93e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1je6A 275 7.01e+01 b.1.1.2,d.19.1.1 71638,71639 1eulA 994 7.16e+01 1eulA 1su4A 994 7.26e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1m4iA 181 7.27e+01 d.108.1.1 74457 1k7hA 476 7.37e+01 c.76.1.1 72101 1vprA 374 7.43e+01 1g5hA 454 7.43e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2a0jA 149 7.45e+01 1tmxA 293 7.53e+01 2c8mA 262 7.54e+01 1nzjA 298 7.56e+01 c.26.1.1 92377 1b3aA 67 7.65e+01 1b3aA d.9.1.1 37410 1ka8A 100 7.70e+01 a.4.5.20 72241 1vzyA 291 7.71e+01 1zzcA 198 7.71e+01 1iam 185 7.76e+01 1zxq b.1.1.3,b.1.1.4 21653,21689 2a1vA 144 7.77e+01 1wmmA 145 7.78e+01 1zvnA 99 7.99e+01 1k78A 149 8.04e+01 a.4.1.5,a.4.1.5 68255,68256 1lfo 128 8.12e+01 1hmt b.60.1.2 27223 7taa 478 8.15e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1azpA 66 8.21e+01 1azpA b.34.13.1 37467 1f35A 162 8.23e+01 1f35A b.94.1.1 59628 1koqA 253 8.34e+01 2cba b.74.1.1 27964 1qftA 175 8.36e+01 1qftA b.60.1.1 27151 1s5jA 847 8.40e+01 1ym5A 300 8.41e+01 2bsfA 176 8.41e+01 1hjrA 158 8.46e+01 1hjrA c.55.3.6 33727 1u2xA 474 8.57e+01 c.72.1.3 107622 1v04A 355 8.60e+01 b.68.6.2 100240 1rj8A 164 8.69e+01 b.22.1.1 97547 1han 297 8.80e+01 1han d.32.1.3,d.32.1.3 38506,38507 1lkdA 297 8.80e+01 d.32.1.3,d.32.1.3 78059,78060 1zw8A 64 8.81e+01 1xrtA 467 8.82e+01 1h6tA 291 8.85e+01 b.1.18.15,c.10.2.1 65686,65687 1owfB 94 8.86e+01 a.55.1.1 87488 2bs6A 90 8.91e+01 1a0p 290 8.93e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 2aboA 136 8.96e+01