# List of top-scoring protein chains for t06-100-30-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 1s5uA 138 6.50e-17 d.38.1.1 98573 2cyeA 133 9.24e-17 1z54A 132 2.71e-16 2aliA 158 9.80e-15 1yliA 153 1.35e-13 1vpmA 169 1.90e-13 2gf6A 135 6.45e-13 1lo7A 141 1.15e-12 d.38.1.1 74144 2essA 248 7.11e-12 2gvhA 288 2.33e-10 2h4uA 145 3.09e-09 2fs2A 151 7.88e-08 1wluA 136 1.07e-07 1j1yA 136 3.19e-07 d.38.1.5 90776 1zkiA 133 6.63e-07 1ixlA 131 2.73e-06 d.38.1.5 90717 1o0iA 138 2.94e-05 d.38.1.5 86532 2b3nA 159 3.63e-05 1q4uA 151 4.53e-05 d.38.1.5 95828 2cwzA 141 1.56e-04 1t82A 155 4.61e-04 d.38.1.5 106639 1sh8A 154 4.87e-04 d.38.1.5 105549 1vh5A 148 5.10e-04 d.38.1.5 100642 1z6bA 154 7.02e-04 1iq6A 134 1.36e-03 d.38.1.4 76755 1yocA 147 6.66e-03 1c8uA 285 1.99e-02 1c8uA d.38.1.3,d.38.1.3 38547,38548 2bi0A 337 4.02e-02 2bdvA 231 1.40e-01 1hn0A 1021 9.40e-01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1txqA 93 1.05e+00 1tbuA 118 1.49e+00 2bm3A 166 1.83e+00 1kt6A 183 2.49e+00 b.60.1.1 84466 2bc4A 211 2.76e+00 1iicA 422 3.15e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1kzfA 230 3.73e+00 d.108.1.3 73354 1mdc 133 3.78e+00 1hmt b.60.1.2 27198 2f71A 298 3.99e+00 1i2sA 282 4.30e+00 e.3.1.1 71104 1f5mA 180 4.41e+00 1f5mB d.110.2.1 40895 1ww7A 160 4.60e+00 3fib 249 4.87e+00 3fib d.171.1.1 42455 2as0A 396 4.99e+00 1pn2A 280 5.58e+00 d.38.1.4,d.38.1.4 94930,94931 2f4lA 297 5.66e+00 1xc3A 302 5.85e+00 1tyjA 170 5.91e+00 2bsjA 133 6.30e+00 1gz8A 299 7.13e+00 d.144.1.7 83405 1n67A 359 7.34e+00 b.2.3.4,b.2.3.4 85354,85355 1ylxA 103 7.55e+00 1yq2A 1024 7.80e+00 1qxyA 252 8.57e+00 d.127.1.1 96565 1b8aA 438 8.87e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1e25A 282 9.62e+00 1e25A e.3.1.1 42731 1aym3 238 9.67e+00 1aym3 2eifA 136 9.87e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 1jyaA 130 1.01e+01 d.198.1.1 67453 1vprA 374 1.07e+01 1jhfA 202 1.11e+01 a.4.5.2,b.87.1.1 63057,63058 1ga6A 372 1.13e+01 1ga1A c.41.1.2 32556 1pa1A 310 1.13e+01 c.45.1.2 94404 1mk4A 157 1.15e+01 d.108.1.1 84979 1zndA 174 1.16e+01 1m4iA 181 1.18e+01 d.108.1.1 74457 1yemA 179 1.22e+01 1yycA 174 1.23e+01 1qy1A 174 1.25e+01 b.60.1.1 96568 1erjA 393 1.26e+01 1erjA b.69.4.1 27660 2cw9A 194 1.29e+01 1of5A 221 1.34e+01 d.17.4.2 86933 1j1bA 420 1.35e+01 d.144.1.7 90758 1b5pA 385 1.36e+01 c.67.1.1 90403 1l0wA 580 1.44e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2db9A 149 1.45e+01 1tc5A 194 1.49e+01 c.110.1.1 106752 1j05B 121 1.51e+01 b.1.1.1 90736 1jeoA 180 1.55e+01 c.80.1.3 66611 1sxvA 172 1.56e+01 1vcaA 202 1.59e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1go4A 205 1.60e+01 d.135.1.1 70292 1xi1A 575 1.60e+01 1oaqH 121 1.63e+01 b.1.1.1 92707 1xjvA 294 1.68e+01 1m1lA 236 1.80e+01 d.260.1.1 91166 1g5hA 454 1.82e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1e1oA 504 1.86e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1mkaA 171 1.88e+01 1mkaA d.38.1.2 38543 2b49A 287 2.00e+01 1w9hA 427 2.03e+01 1ig8A 486 2.04e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1g79A 218 2.08e+01 1ci0A b.45.1.1 25752 2g1lA 104 2.14e+01 1j09A 468 2.22e+01 a.97.1.1,c.26.1.1 77025,77026 2gtqA 867 2.24e+01 1iqzA 81 2.27e+01 d.58.1.4 66281 1n0wA 243 2.28e+01 c.37.1.11 79772 1zboA 210 2.31e+01 1dqeA 137 2.33e+01 1dqeA a.39.2.1 17388 1n4xH 120 2.34e+01 b.1.1.1 85324 1qg7A 67 2.36e+01 1a15A d.9.1.1 37449 2f96A 224 2.37e+01 1hkfA 122 2.37e+01 b.1.1.1 83553 1wznA 252 2.41e+01 1vzyA 291 2.43e+01 3pmgA 561 2.52e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1yb3A 175 2.53e+01 1rwhA 757 2.63e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1w66A 232 2.63e+01 1mvfA 135 2.63e+01 b.1.1.1 85141 1inp 400 2.65e+01 1inp e.7.1.1 42972 1r77A 103 2.65e+01 1y8qA 346 2.66e+01 2fpnA 216 2.70e+01 1g7nA 131 2.71e+01 b.60.1.2 83274 1h6lA 353 2.75e+01 b.68.3.1 60687 2aq6A 147 2.80e+01 1lyvA 306 2.81e+01 c.45.1.2 74348 2c8mA 262 2.89e+01 1q33A 292 2.97e+01 d.113.1.1 95657 1cbs 137 2.99e+01 1hmt b.60.1.2 27201 1nzjA 298 3.02e+01 c.26.1.1 92377 1jbeA 128 3.03e+01 3chy c.23.1.1 62845 1o6vA 466 3.22e+01 b.1.18.15,c.10.2.1 81099,81100 2bcjB 340 3.25e+01 1noa 113 3.29e+01 2mcm b.1.7.1 22208 1b65A 375 3.32e+01 1b65A d.154.1.1 42020 1q7lA 198 3.33e+01 c.56.5.4 96044 1nlbH 218 3.35e+01 b.1.1.1,b.1.1.2 80621,80622 1j2gA 319 3.36e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1tzzA 392 3.39e+01 1tu1A 148 3.43e+01 d.107.1.3 107316 1te5A 257 3.47e+01 d.153.1.1 106795 1a9xB 379 3.50e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1wk2A 121 3.53e+01 1m3sA 186 3.58e+01 c.80.1.3 78573 1m3yA 413 3.62e+01 b.121.2.3,b.121.2.3 78579,78580 1mbyA 88 3.66e+01 d.223.1.1 78931 1xeoA 168 3.66e+01 2fr2A 172 3.69e+01 1qftA 175 3.72e+01 1qftA b.60.1.1 27151 1v93A 296 3.82e+01 c.1.23.1 100532 1njhA 119 3.83e+01 b.128.1.1 85787 1c30B 382 3.84e+01 c.8.3.1,c.23.16.1 30736,31413 1gotB 340 3.86e+01 1tbgA b.69.4.1 27648 1oo0A 147 3.87e+01 d.232.1.1 87182 1xvxA 312 3.98e+01 2booA 247 3.99e+01 1dnlA 199 4.08e+01 1ci0A b.45.1.1 25753 1k78A 149 4.13e+01 a.4.1.5,a.4.1.5 68255,68256 1widA 130 4.22e+01 2fpeA 62 4.24e+01 1esxA 96 4.26e+01 1esxA j.11.1.1 59501 1h6uA 308 4.27e+01 b.1.18.15,c.10.2.1 65688,65689 1qusA 322 4.27e+01 1ltm d.2.1.6 36991 3cox 507 4.29e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1vq0A 302 4.29e+01 1b7yA 350 4.30e+01 1pysA d.104.1.1 40776 1edqA 540 4.36e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1akz 223 4.36e+01 3eugA c.18.1.1 31007 2cu3A 64 4.41e+01 1rcqA 357 4.58e+01 b.49.2.2,c.1.6.1 104882,104883 1c0pA 363 4.65e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1k87A 669 4.67e+01 a.176.1.1,c.1.23.2 77286,77287 1lrzA 426 4.73e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1t3tA 1303 4.78e+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 1bs0A 384 4.82e+01 1bs0A c.67.1.4 34490 1w68A 390 4.85e+01 a.25.1.2 109216 1o4yA 288 4.85e+01 b.29.1.2 92473 1vr4A 103 4.85e+01 1hr0W 71 4.85e+01 1ah9 b.40.4.5 25329 2bgiA 272 4.94e+01 1zhxA 438 4.99e+01 1t4wA 196 5.03e+01 b.2.5.2 106427 1lla 628 5.08e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1m98A 317 5.09e+01 a.175.1.1,d.17.4.6 78866,78867 2bwqA 129 5.10e+01 1wkbA 810 5.11e+01 1vg8A 207 5.17e+01 c.37.1.8 108606 1yqgA 263 5.23e+01 1i40A 175 5.31e+01 b.40.5.1 66024 1exrA 148 5.32e+01 1cll a.39.1.5 17299 1wxcB 134 5.33e+01 2h3jA 75 5.34e+01 1te2A 226 5.34e+01 c.108.1.6 106792 1jl2A 156 5.38e+01 c.55.3.1 66822 1w9aA 147 5.44e+01 1xfrA 128 5.51e+01 2b06A 155 5.52e+01 2fdiA 211 5.56e+01 1vjzA 341 5.57e+01 c.1.8.3 100838 1gqeA 365 5.59e+01 e.38.1.1 70351 1lkkA 105 5.59e+01 1lckA d.93.1.1 40412 2bmeA 186 5.60e+01 2g09A 297 5.63e+01 1nbwA 607 5.71e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2ftbA 125 5.72e+01 1tkkA 366 5.72e+01 c.1.11.2,d.54.1.1 107089,107090 1fm4A 159 5.74e+01 1bv1 d.129.3.1 76186 1gheA 177 5.83e+01 d.108.1.1 76222 2aboA 136 5.85e+01 1g38A 393 5.85e+01 2admA c.66.1.27 60235 2f5uA 447 5.88e+01 1a2yA 107 5.90e+01 8fabA b.1.1.1 19926 1lshA 1056 5.93e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1u7kA 131 5.96e+01 1lf7A 182 6.00e+01 b.60.1.1 73878 1iam 185 6.00e+01 1zxq b.1.1.3,b.1.1.4 21653,21689 1sheA 103 6.06e+01 d.274.1.1 105551 1iujA 106 6.19e+01 d.58.4.5 90701 1jlyA 304 6.22e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1zbfA 142 6.28e+01 1n0wB 35 6.28e+01 j.97.1.1 79773 2fhfA 1083 6.33e+01 1tuaA 191 6.46e+01 d.51.1.1,d.51.1.1 107321,107322 2dri 271 6.48e+01 2dri c.93.1.1 35637 1e44B 96 6.50e+01 1e44B b.101.1.1 59220 1fm0D 81 6.52e+01 1fmaD d.15.3.1 37642 1nxuA 333 6.52e+01 c.122.1.1 86389 1omhA 293 6.56e+01 d.89.1.5 93348 2bhoA 130 6.66e+01 1mzbA 136 6.66e+01 a.4.5.42 91497 1mxmA 254 6.67e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1knwA 425 6.68e+01 b.49.2.3,c.1.6.1 90969,90970 1ga3A 113 6.77e+01 1ga3A a.26.1.2 60411 1nkqA 259 6.82e+01 d.177.1.1 103862 1w6nA 134 6.94e+01 1xgsA 295 6.95e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1xpkC 388 6.96e+01 1tlyA 278 6.97e+01 f.4.6.1 107143 1k77A 260 7.05e+01 c.1.15.5 72096 1q3iA 214 7.08e+01 d.220.1.1 104524 1q8iA 783 7.14e+01 c.55.3.5,e.8.1.1 96208,96209 2g0qA 173 7.16e+01 1xpmA 396 7.18e+01 2cqeA 98 7.19e+01 1lk2A 274 7.19e+01 b.1.1.2,d.19.1.1 91056,91057 1ox0A 430 7.21e+01 c.95.1.1,c.95.1.1 87495,87496 1rz1A 161 7.30e+01 b.45.1.2 98124 1wmwA 330 7.44e+01 1gy6A 127 7.60e+01 d.17.4.2 70736 1pcfA 66 7.64e+01 1pcfA d.18.1.1 38142 1m55A 197 7.64e+01 d.89.1.3 74469 1kopA 223 7.65e+01 2cba b.74.1.1 27966 1k55A 246 7.70e+01 e.3.1.1 68156 1ztsA 139 7.71e+01 1b56 135 7.72e+01 1hmt b.60.1.2 27183 2gtrA 261 7.78e+01 1xs0A 136 7.81e+01 3il8 72 7.82e+01 1tvxA d.9.1.1 37356 2a6cA 83 7.83e+01 1nb9A 147 7.84e+01 b.43.5.1 85515 1ttwA 138 7.84e+01 d.198.1.1 107308 1gqpA 221 7.86e+01 b.18.1.9 70372 1j5uA 136 7.96e+01 d.208.1.1 71584 1j6oA 268 7.99e+01 c.1.9.12 77088 1z9lA 128 8.00e+01 1i3zA 103 8.03e+01 d.93.1.1 83667 2bcfA 276 8.04e+01 1mvuB 121 8.04e+01 b.1.1.1 91475 1f39A 101 8.08e+01 1umuA b.87.1.1 28386 2fi9A 128 8.08e+01 1bwwA 109 8.13e+01 8fabA b.1.1.1 20518 1orvA 728 8.18e+01 b.70.3.1,c.69.1.24 87354,87355 2axoA 270 8.20e+01 1xn5A 146 8.22e+01 1vjqA 79 8.27e+01 k.43.1.1 100830 1wmaA 276 8.32e+01 1s5jA 847 8.34e+01 1sz2A 332 8.44e+01 1zxkA 98 8.48e+01 2ae5B 528 8.51e+01 1quqA 129 8.53e+01 1quqA b.40.4.3 25303 1k32A 1045 8.53e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1on2A 142 8.53e+01 a.4.5.24,a.76.1.1 87103,87104 2c5qA 240 8.59e+01 1yopA 83 8.63e+01 1djxA 624 8.74e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1js1X 324 8.80e+01 c.78.1.1,c.78.1.1 71834,71835 1fcdA 401 8.82e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1rj8A 164 8.83e+01 b.22.1.1 97547 2affB 44 8.89e+01 1zv9A 172 8.97e+01 1ytaA 180 8.98e+01