# List of top-scoring protein chains for t06-100-30-dssp-ebghstl-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 2.13e-21 d.38.1.1 98573 2cyeA 133 5.04e-21 1z54A 132 2.35e-20 2aliA 158 1.01e-17 1yliA 153 4.40e-17 1vpmA 169 1.79e-16 2gf6A 135 2.28e-16 1lo7A 141 8.18e-16 d.38.1.1 74144 2essA 248 4.26e-15 2gvhA 288 1.27e-13 2h4uA 145 1.68e-11 1wluA 136 5.32e-10 1j1yA 136 6.34e-10 d.38.1.5 90776 2fs2A 151 7.40e-10 1zkiA 133 3.90e-09 1ixlA 131 5.21e-08 d.38.1.5 90717 1o0iA 138 2.38e-07 d.38.1.5 86532 1q4uA 151 8.66e-07 d.38.1.5 95828 2b3nA 159 1.38e-06 1t82A 155 1.55e-06 d.38.1.5 106639 2cwzA 141 2.52e-06 1vh5A 148 3.66e-06 d.38.1.5 100642 1sh8A 154 1.85e-05 d.38.1.5 105549 1iq6A 134 6.30e-05 d.38.1.4 76755 1c8uA 285 1.08e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 1z6bA 154 1.37e-04 1yocA 147 2.49e-04 2bi0A 337 3.07e-03 1tbuA 118 1.09e-02 2bdvA 231 1.41e-02 2bm3A 166 3.06e-01 2f4lA 297 5.84e-01 1kt6A 183 7.21e-01 b.60.1.1 84466 2as0A 396 8.08e-01 1zxkA 98 1.12e+00 1oo0A 147 1.33e+00 d.232.1.1 87182 1pn2A 280 1.46e+00 d.38.1.4,d.38.1.4 94930,94931 1b8aA 438 1.54e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1j09A 468 1.67e+00 a.97.1.1,c.26.1.1 77025,77026 3fib 249 1.73e+00 3fib d.171.1.1 42455 1tyjA 170 1.77e+00 1e25A 282 2.44e+00 1e25A e.3.1.1 42731 1hn0A 1021 2.48e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1iicA 422 2.57e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1m3sA 186 2.71e+00 c.80.1.3 78573 1xc3A 302 2.98e+00 2f71A 298 3.53e+00 1txqA 93 3.57e+00 1iujA 106 3.58e+00 d.58.4.5 90701 1pa1A 310 3.91e+00 c.45.1.2 94404 1mkaA 171 3.93e+00 1mkaA d.38.1.2 38543 1w9hA 427 3.95e+00 2eifA 136 4.18e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 1dqeA 137 4.52e+00 1dqeA a.39.2.1 17388 1ww7A 160 4.88e+00 1yemA 179 4.92e+00 1g38A 393 4.98e+00 2admA c.66.1.27 60235 1nlbH 218 5.26e+00 b.1.1.1,b.1.1.2 80621,80622 1oaqH 121 5.32e+00 b.1.1.1 92707 1rcqA 357 5.62e+00 b.49.2.2,c.1.6.1 104882,104883 1l0wA 580 5.71e+00 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1jeoA 180 5.82e+00 c.80.1.3 66611 1kzfA 230 6.18e+00 d.108.1.3 73354 1f5mA 180 6.23e+00 1f5mB d.110.2.1 40895 1vcaA 202 6.35e+00 1vcaA b.1.1.3,b.1.1.4 21649,21685 2bsjA 133 6.78e+00 1yq2A 1024 6.91e+00 1wxcB 134 6.95e+00 1n4xH 120 7.07e+00 b.1.1.1 85324 1erjA 393 7.37e+00 1erjA b.69.4.1 27660 1jhfA 202 7.54e+00 a.4.5.2,b.87.1.1 63057,63058 1of5A 221 7.54e+00 d.17.4.2 86933 1te5A 257 7.57e+00 d.153.1.1 106795 2bc4A 211 7.74e+00 1y8qA 346 7.81e+00 1mdc 133 7.89e+00 1hmt b.60.1.2 27198 1f3mA 80 7.89e+00 1f3mA j.66.1.1 46358 1s5jA 847 7.91e+00 1g5hA 454 8.04e+00 1g5hA c.51.1.1,d.104.1.1 60270,60271 2gtqA 867 8.07e+00 1jbeA 128 8.25e+00 3chy c.23.1.1 62845 1qxyA 252 8.41e+00 d.127.1.1 96565 1zndA 174 8.57e+00 1gz8A 299 8.79e+00 d.144.1.7 83405 1qy1A 174 8.90e+00 b.60.1.1 96568 1jyaA 130 9.04e+00 d.198.1.1 67453 1m1lA 236 9.22e+00 d.260.1.1 91166 3cox 507 9.67e+00 1b8sA c.3.1.2,d.16.1.1 30332,37863 1njhA 119 9.67e+00 b.128.1.1 85787 1nzjA 298 9.75e+00 c.26.1.1 92377 1j1bA 420 9.77e+00 d.144.1.7 90758 2b49A 287 9.80e+00 1e44B 96 9.83e+00 1e44B b.101.1.1 59220 1i2sA 282 9.93e+00 e.3.1.1 71104 1te2A 226 1.01e+01 c.108.1.6 106792 1ylxA 103 1.01e+01 2g1lA 104 1.02e+01 1hkfA 122 1.05e+01 b.1.1.1 83553 1g7nA 131 1.11e+01 b.60.1.2 83274 1t4wA 196 1.14e+01 b.2.5.2 106427 1j05B 121 1.19e+01 b.1.1.1 90736 1inp 400 1.20e+01 1inp e.7.1.1 42972 1vh4A 435 1.24e+01 b.80.6.1 100640 1t3tA 1303 1.25e+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 1mbyA 88 1.26e+01 d.223.1.1 78931 1xfrA 128 1.28e+01 1vzyA 291 1.29e+01 1a9xB 379 1.32e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1go4A 205 1.33e+01 d.135.1.1 70292 1yycA 174 1.33e+01 1edqA 540 1.35e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2fpnA 216 1.36e+01 1nnxA 109 1.38e+01 b.40.10.1 92013 1o6vA 466 1.44e+01 b.1.18.15,c.10.2.1 81099,81100 1dnlA 199 1.49e+01 1ci0A b.45.1.1 25753 1tc5A 194 1.51e+01 c.110.1.1 106752 1zo0A 126 1.54e+01 1c30B 382 1.58e+01 c.8.3.1,c.23.16.1 30736,31413 1lkkA 105 1.60e+01 1lckA d.93.1.1 40412 2booA 247 1.63e+01 1ox0A 430 1.63e+01 c.95.1.1,c.95.1.1 87495,87496 1vprA 374 1.67e+01 1w66A 232 1.67e+01 1xeoA 168 1.68e+01 2f96A 224 1.70e+01 1v93A 296 1.71e+01 c.1.23.1 100532 1fm0D 81 1.71e+01 1fmaD d.15.3.1 37642 2bcjB 340 1.75e+01 2cw9A 194 1.81e+01 1h6uA 308 1.82e+01 b.1.18.15,c.10.2.1 65688,65689 1wkbA 810 1.82e+01 1qg7A 67 1.85e+01 1a15A d.9.1.1 37449 2auhB 59 1.85e+01 1akz 223 1.90e+01 3eugA c.18.1.1 31007 1g79A 218 1.94e+01 1ci0A b.45.1.1 25752 1mvuB 121 1.96e+01 b.1.1.1 91475 2bgiA 272 2.00e+01 1m3yA 413 2.02e+01 b.121.2.3,b.121.2.3 78579,78580 2fpeA 62 2.06e+01 2db9A 149 2.07e+01 1m4iA 181 2.11e+01 d.108.1.1 74457 2aalA 131 2.12e+01 2ftbA 125 2.12e+01 1yqgA 263 2.12e+01 1qznA 173 2.13e+01 b.2.2.2 104669 1b7yA 350 2.14e+01 1pysA d.104.1.1 40776 1wznA 252 2.14e+01 1lla 628 2.14e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1vjzA 341 2.15e+01 c.1.8.3 100838 2cu3A 64 2.16e+01 1f39A 101 2.18e+01 1umuA b.87.1.1 28386 1woqA 267 2.19e+01 c.55.1.10,c.55.1.10 109462,109463 1b65A 375 2.26e+01 1b65A d.154.1.1 42020 1hynP 379 2.33e+01 1hynP d.112.1.2 61408 1k78A 149 2.36e+01 a.4.1.5,a.4.1.5 68255,68256 2fdiA 211 2.38e+01 1gotB 340 2.40e+01 1tbgA b.69.4.1 27648 1lrzA 426 2.42e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1b5pA 385 2.44e+01 c.67.1.1 90403 1zv9A 172 2.45e+01 1zbfA 142 2.47e+01 1kxoA 184 2.48e+01 b.60.1.1 84475 1ncwH 222 2.53e+01 b.1.1.1,b.1.1.2 85555,85556 1sxvA 172 2.63e+01 2aboA 136 2.65e+01 1djxA 624 2.70e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1vlyA 338 2.73e+01 b.44.2.1,d.250.1.1 108871,108872 1tuaA 191 2.73e+01 d.51.1.1,d.51.1.1 107321,107322 1q7lA 198 2.75e+01 c.56.5.4 96044 1ga3A 113 2.77e+01 1ga3A a.26.1.2 60411 2bklA 695 2.77e+01 1xniA 118 2.81e+01 1sa3A 262 2.82e+01 c.52.1.23 105400 1rl4A 188 2.85e+01 d.167.1.1 97636 1iqzA 81 2.87e+01 d.58.1.4 66281 1n0wB 35 2.90e+01 j.97.1.1 79773 1nb9A 147 2.91e+01 b.43.5.1 85515 2ar0A 541 2.94e+01 1xpkC 388 3.01e+01 1e1oA 504 3.01e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1xpmA 396 3.04e+01 1w6nA 134 3.06e+01 1ug3A 339 3.13e+01 1u04A 771 3.13e+01 b.34.14.1,c.55.3.10 107539,107540 1fjgQ 105 3.14e+01 1fjfQ b.40.4.5 25352 2a8jA 420 3.17e+01 1q33A 292 3.18e+01 d.113.1.1 95657 2fimA 276 3.24e+01 1xi1A 575 3.28e+01 1qftA 175 3.29e+01 1qftA b.60.1.1 27151 1bxoA 323 3.30e+01 2er7E b.50.1.2 26805 1ztuA 341 3.32e+01 1exrA 148 3.40e+01 1cll a.39.1.5 17299 1qksA 567 3.40e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 2bwqA 129 3.43e+01 1c0pA 363 3.51e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1vyfA 135 3.55e+01 b.60.1.2 108902 1vr4A 103 3.60e+01 1a62 130 3.61e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 2aq6A 147 3.64e+01 1i1jA 108 3.67e+01 1i1jA b.34.2.1 61531 2bhoA 130 3.68e+01 2c8mA 262 3.68e+01 1on2A 142 3.69e+01 a.4.5.24,a.76.1.1 87103,87104 1pufB 73 3.71e+01 a.4.1.1 95132 2bh1A 250 3.75e+01 2fr2A 172 3.75e+01 1a78A 134 3.76e+01 1c1lA b.29.1.3 24212 1u7kA 131 3.76e+01 1qrvA 73 3.81e+01 1cktA a.21.1.1 16425 1o8vA 134 3.82e+01 b.60.1.2 86680 1aym3 238 3.83e+01 1aym3 1vq0A 302 3.86e+01 1lshA 1056 3.86e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1ed8A 449 3.92e+01 1b8jA c.76.1.1 34988 1mkkA 96 3.93e+01 g.17.1.1 79240 2axoA 270 3.95e+01 1pcfA 66 4.01e+01 1pcfA d.18.1.1 38142 1l5aA 436 4.04e+01 c.43.1.2,c.43.1.2 75923,75924 1ifc 132 4.05e+01 b.60.1.2 27173 2a6cA 83 4.09e+01 1m98A 317 4.12e+01 a.175.1.1,d.17.4.6 78866,78867 1fm0E 150 4.16e+01 1fmaE d.41.5.1 38629 1b56 135 4.17e+01 1hmt b.60.1.2 27183 1mkmA 249 4.18e+01 a.4.5.33,d.110.2.2 79242,79243 1a2yA 107 4.20e+01 8fabA b.1.1.1 19926 1wcdJ 441 4.20e+01 2bmeA 186 4.25e+01 1js1X 324 4.31e+01 c.78.1.1,c.78.1.1 71834,71835 1xvxA 312 4.32e+01 1wdeA 294 4.32e+01 1wk2A 121 4.37e+01 1ci9A 392 4.39e+01 e.3.1.1 64767 1tzzA 392 4.44e+01 1i12A 160 4.48e+01 1i21A d.108.1.1 61515 1xx6A 191 4.48e+01 1zvnA 99 4.48e+01 1g7sA 594 4.50e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1mqkL 120 4.50e+01 b.1.1.1 85054 2fh7A 595 4.51e+01 1omhA 293 4.58e+01 d.89.1.5 93348 1tkkA 366 4.58e+01 c.1.11.2,d.54.1.1 107089,107090 1k87A 669 4.64e+01 a.176.1.1,c.1.23.2 77286,77287 1v2dA 381 4.64e+01 c.67.1.1 108281 1oq1A 223 4.67e+01 b.29.1.17 93408 1z7lA 276 4.72e+01 1ejbA 168 4.78e+01 1rvv1 c.16.1.1 59417 1b3aA 67 4.79e+01 1b3aA d.9.1.1 37410 1ga6A 372 4.86e+01 1ga1A c.41.1.2 32556 2bbkL 125 4.87e+01 2bbkL g.21.1.1 44882 1q3iA 214 4.90e+01 d.220.1.1 104524 1dpjA 329 4.93e+01 1smrA b.50.1.2 26828 1a7tA 232 4.94e+01 1a7tA d.157.1.1 42041 1ws0A 156 4.95e+01 1p9yA 121 5.02e+01 d.241.2.1 94402 2awgA 118 5.08e+01 1bwwA 109 5.09e+01 8fabA b.1.1.1 20518 1tlyA 278 5.09e+01 f.4.6.1 107143 1zhxA 438 5.22e+01 1zboA 210 5.26e+01 1i3zA 103 5.26e+01 d.93.1.1 83667 1j5uA 136 5.27e+01 d.208.1.1 71584 2d2eA 250 5.29e+01 1nxuA 333 5.35e+01 c.122.1.1 86389 1ulrA 88 5.41e+01 3pcgM 238 5.43e+01 3pchM b.3.6.1 22742 1h6lA 353 5.43e+01 b.68.3.1 60687 1vg8A 207 5.45e+01 c.37.1.8 108606 1q8rA 120 5.55e+01 d.79.6.1 96225 2cqeA 98 5.56e+01 2fxqA 264 5.57e+01 1mvfA 135 5.62e+01 b.1.1.1 85141 1n0wA 243 5.68e+01 c.37.1.11 79772 1wchA 315 5.68e+01 1sur 215 5.69e+01 1sur c.26.2.2 31620 1w6sA 599 5.72e+01 1jl2A 156 5.80e+01 c.55.3.1 66822 1zyoA 191 5.82e+01 1nkqA 259 5.83e+01 d.177.1.1 103862 1wdyA 285 5.83e+01 2ccvA 101 5.85e+01 1w9aA 147 5.89e+01 1orvA 728 5.92e+01 b.70.3.1,c.69.1.24 87354,87355 2amdA 311 5.97e+01 1rz1A 161 6.08e+01 b.45.1.2 98124 1vavA 222 6.10e+01 b.29.1.18 108472 3il8 72 6.15e+01 1tvxA d.9.1.1 37356 1noa 113 6.15e+01 2mcm b.1.7.1 22208 1sfdA 105 6.23e+01 b.6.1.1 105480 1aj2 282 6.23e+01 1aj2 c.1.21.1 29665 1jl1A 155 6.25e+01 c.55.3.1 66821 1q40B 219 6.25e+01 d.17.4.2 95771 2glfA 450 6.26e+01 2erbA 125 6.28e+01 2h58A 330 6.28e+01 1ztsA 139 6.35e+01 1pmnA 364 6.41e+01 d.144.1.7 94907 1lyvA 306 6.42e+01 c.45.1.2 74348 1wmhA 89 6.43e+01 1aocA 175 6.46e+01 1aocA g.17.1.5 44817 1lf7A 182 6.47e+01 b.60.1.1 73878 1cbs 137 6.48e+01 1hmt b.60.1.2 27201 1mjuL 219 6.58e+01 b.1.1.1,b.1.1.2 91304,91305 1e3oC 160 6.70e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1mzbA 136 6.73e+01 a.4.5.42 91497 1s4kA 120 6.77e+01 a.35.1.6 105254 2fwmX 250 6.77e+01 1hdkA 141 6.84e+01 b.29.1.3 65807 1vrmA 325 6.85e+01 1owfB 94 6.88e+01 a.55.1.1 87488 1j5sA 463 6.88e+01 c.1.9.8 71580 1m3qA 317 6.92e+01 a.96.1.3,d.129.1.2 91184,91185 1ogwA 76 6.93e+01 d.15.1.1 87001 1tuoA 464 6.94e+01 2c5qA 240 6.96e+01 1zanL 214 6.99e+01 1qusA 322 7.01e+01 1ltm d.2.1.6 36991 4eugA 229 7.04e+01 3eugA c.18.1.1 31019 1xgkA 352 7.06e+01 1zn6A 227 7.06e+01 1rj8A 164 7.09e+01 b.22.1.1 97547 1hr0W 71 7.10e+01 1ah9 b.40.4.5 25329 1n62B 809 7.11e+01 d.41.1.1,d.133.1.1 80092,80093 1k6iA 352 7.11e+01 c.2.1.2 68223 1x88A 359 7.11e+01 1zz1A 369 7.12e+01 2g0qA 173 7.21e+01 2affB 44 7.22e+01 1e2kA 331 7.23e+01 1qhiA c.37.1.1 31854 1xeuA 263 7.24e+01 1jmtA 104 7.31e+01 d.58.7.3 63180 1qhxA 178 7.33e+01 1qhsA c.37.1.3 31936 1gl4B 98 7.33e+01 b.1.1.4 65288 1meoA 209 7.33e+01 c.65.1.1 79035 1q0xH 221 7.36e+01 b.1.1.1,b.1.1.2 95517,95518 2a90A 240 7.46e+01 1fm4A 159 7.55e+01 1bv1 d.129.3.1 76186 1tqyB 415 7.56e+01 c.95.1.1,c.95.1.1 107247,107248 1yoaA 159 7.63e+01 1mspA 126 7.65e+01 1mspA b.1.11.2 22333 1fh9A 312 7.68e+01 1taxA c.1.8.3 28913 1brt 277 7.70e+01 1brt c.69.1.12 34699 1uj6A 227 7.73e+01 c.124.1.4,d.58.40.1 107898,107899 1vk3A 615 7.77e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1j2gA 319 7.78e+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 1ic6A 279 7.92e+01 1gci c.41.1.1 62257 1c1lA 136 7.93e+01 1c1lA b.29.1.3 24219 1gqpA 221 7.93e+01 b.18.1.9 70372 2h3jA 75 7.96e+01 1u69A 163 7.98e+01 d.32.1.7 107699 1nszA 347 8.08e+01 b.30.5.4 80724 1jhdA 396 8.12e+01 b.122.1.3,c.26.1.5 66712,66713 1zvyA 136 8.13e+01 1tu1A 148 8.15e+01 d.107.1.3 107316 1ywmA 200 8.16e+01 1psrA 100 8.16e+01 1psrA a.39.1.2 17180 1crzA 403 8.18e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 2a1vA 144 8.18e+01 1a6m 151 8.21e+01 1a6m a.1.1.2 15018 2aieP 203 8.24e+01 1h6tA 291 8.24e+01 b.1.18.15,c.10.2.1 65686,65687 1hjrA 158 8.28e+01 1hjrA c.55.3.6 33727 4bcl 366 8.30e+01 4bcl b.75.1.1 27968 1cs6A 382 8.36e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1widA 130 8.43e+01 1w19A 160 8.47e+01 1hnjA 317 8.57e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1my7A 114 8.61e+01 b.1.18.1 79675 1deuA 277 8.65e+01 1theB d.3.1.1 37085 1xjvA 294 8.68e+01 2evbA 74 8.68e+01 1f35A 162 8.77e+01 1f35A b.94.1.1 59628 1oe4A 247 8.78e+01 c.18.1.3 86895 2bogX 286 8.78e+01 2gqrA 237 8.78e+01 1k61A 60 8.82e+01 a.4.1.1 77270 1esxA 96 8.86e+01 1esxA j.11.1.1 59501 1cz4A 185 8.88e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1gy6A 127 8.89e+01 d.17.4.2 70736 1iynA 295 8.96e+01 a.93.1.1 90722