# List of top-scoring protein chains for t2k-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 1is8K 84 7.55e-01 d.205.1.1 66331 1jq4A 98 1.09e+00 d.15.4.2 67083 1jg5A 83 1.63e+00 d.205.1.1 66666 1pzwA 80 1.70e+00 g.39.1.10 95483 1ffkI 194 2.38e+00 1ffkI d.12.1.2 37494 2faoA 309 2.57e+00 1r3eA 309 2.65e+00 b.122.1.1,d.265.1.2 96907,96908 1y8qA 346 3.37e+00 2drpA 66 3.59e+00 2drpA g.37.1.1,g.37.1.1 45026,45027 1u7iA 136 4.98e+00 d.32.1.7 107724 1sgvA 316 5.17e+00 b.122.1.1,d.265.1.2 98858,98859 1f1uA 323 5.37e+00 d.32.1.3,d.32.1.3 83200,83201 1j0pA 108 5.71e+00 a.138.1.1 90743 1f1xA 322 5.75e+00 d.32.1.3,d.32.1.3 83208,83209 2cthA 107 5.84e+00 3cyr a.138.1.1 19652 1xgsA 295 6.84e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 2mhr 118 7.06e+00 2mhr a.24.4.1 16581 1innA 166 7.16e+00 1j98A d.185.1.2 62608 1vjeA 166 7.16e+00 d.185.1.2 100807 1e5dA 402 7.17e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1t3lA 337 7.46e+00 b.34.2.1,c.37.1.1 106358,106359 1ixxB 123 7.73e+00 1ixxB d.169.1.1 42336 1b59A 370 7.86e+00 1bn5 a.4.5.25,d.127.1.1 16225,41162 1j34B 123 8.20e+00 d.169.1.1 84049 1t0hB 224 8.69e+00 c.37.1.1 106208 1jykA 254 8.87e+00 c.68.1.13 67458 1wm3A 72 9.40e+00 1fyvA 161 9.99e+00 1fyvA c.23.2.1 31127 1nrfA 262 1.01e+01 e.3.1.1 92086 1jzuA 157 1.04e+01 b.60.1.1 84271 2cybA 323 1.06e+01 1y9kA 157 1.08e+01 1a7e 118 1.09e+01 2mhr a.24.4.1 16583 1bn5 478 1.15e+01 1bn5 a.4.5.25,d.127.1.1 16224,41161 1z02A 446 1.16e+01 1b6a 478 1.17e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1va4A 279 1.21e+01 c.69.1.12 108458 1fyhB 229 1.26e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1a5r 103 1.27e+01 1a5r d.15.1.1 37597 1jdqA 98 1.41e+01 d.68.3.3 66559 1j3mA 129 1.43e+01 d.129.7.1 103836 2bzoB 79 1.43e+01 1laxA 370 1.44e+01 c.94.1.1 84576 1a99A 344 1.47e+01 1pot c.94.1.1 35812 2gtqA 867 1.48e+01 1mh3A 421 1.51e+01 a.4.1.1,c.94.1.1 79112,79113 1omp 370 1.54e+01 4mbp c.94.1.1 35778 2fb6A 117 1.62e+01 1f0xA 571 1.66e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1mpb 370 1.71e+01 4mbp c.94.1.1 35780 1v4pA 157 1.72e+01 1cqa 133 1.78e+01 3nul d.110.1.1 40890 1ww8A 439 1.82e+01 2cwoA 197 1.85e+01 1o0xA 262 1.88e+01 d.127.1.1 80755 1v7oA 165 1.94e+01 d.67.1.2 100480 2f7fA 494 1.96e+01 1q5yA 85 1.97e+01 d.58.18.4 95950 1z08A 170 2.06e+01 2matA 264 2.10e+01 1c24A d.127.1.1 41146 2ggcA 263 2.11e+01 1a94A 99 2.14e+01 1fmb b.50.1.1 26599 1zu0A 529 2.18e+01 1k8hA 133 2.28e+01 b.111.1.1 72176 1yqfA 203 2.35e+01 1ytvA 366 2.38e+01 1ny1A 240 2.42e+01 c.6.2.3 86395 1anf 370 2.50e+01 4mbp c.94.1.1 35776 1gmlA 178 2.51e+01 c.8.5.2 70273 1uekA 275 2.64e+01 d.14.1.5,d.58.26.5 88483,88484 1x9dA 538 2.65e+01 1fg9C 245 2.66e+01 1jrhI b.1.2.1,b.1.2.1 22060,22061 1nb5I 98 2.67e+01 d.17.1.2 80381 1brwA 433 2.72e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1y9wA 140 2.72e+01 1dazC 99 2.73e+01 1hvc b.50.1.1 26501 1k8wA 327 2.73e+01 b.122.1.1,d.265.1.2 83094,90388 1m6eX 359 2.74e+01 c.66.1.35 91188 1k26A 156 2.79e+01 d.113.1.1 72003 1k2eA 156 2.81e+01 d.113.1.1 72010 1l6l1 77 2.82e+01 1jrkA 156 2.83e+01 d.113.1.1 71827 1yemA 179 2.84e+01 2f20A 240 2.89e+01 2d8sA 80 2.92e+01 1nh0A 99 2.95e+01 b.50.1.1 91869 1ldjA 760 2.97e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 2fhzA 109 3.00e+01 2a3mA 130 3.16e+01 1qysA 106 3.22e+01 k.41.1.1 96603 1k1tA 99 3.32e+01 b.50.1.1 71995 1aaqA 99 3.35e+01 1fmb b.50.1.1 26688 1xnzA 264 3.42e+01 1c24A 263 3.43e+01 1c24A d.127.1.1 41148 1xa1A 255 3.44e+01 e.3.1.1 109529 4matA 278 3.46e+01 1c24A d.127.1.1 41150 1d1dA 262 3.54e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1l1qA 186 3.62e+01 c.61.1.1 77653 2bkqA 212 3.68e+01 2dtr 226 3.70e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1mat 264 3.82e+01 1c24A d.127.1.1 41152 2c4wA 176 3.85e+01 1xkzA 255 3.88e+01 1n3lA 372 3.91e+01 c.26.1.1 79966 4mbp 370 3.95e+01 4mbp c.94.1.1 35777 1ipiA 123 3.97e+01 c.52.1.18 66255 1ww9A 392 3.98e+01 1a0i 348 3.98e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 5hvpA 99 3.98e+01 1fmb b.50.1.1 26605 1fukA 165 3.98e+01 1fukA c.37.1.19 32409 1t6aA 126 3.99e+01 d.129.8.1 106555 1ea0A 1479 4.02e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1hvc 203 4.06e+01 1hvc b.50.1.1 26614 1se4 239 4.09e+01 3seb b.40.2.2,d.15.6.1 25187,37776 2ae0X 345 4.13e+01 1udzA 182 4.18e+01 b.51.1.1 99239 1d5mC 239 4.21e+01 3seb b.40.2.2,d.15.6.1 25185,37774 2gaeA 346 4.39e+01 1a9mA 99 4.51e+01 1hvc b.50.1.1 26642 1vmiA 355 4.51e+01 2f5gA 133 4.61e+01 1fo3A 460 4.66e+01 1dl2A a.102.2.1 18845 3seb 238 4.67e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1ve0A 134 4.71e+01 1cyu 98 4.76e+01 1stfI d.17.1.2 38004 1u5mA 73 4.78e+01 1nktA 922 4.79e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1edoA 244 4.80e+01 1ybvA c.2.1.2 29896 1ak7 174 4.80e+01 1cof d.109.1.2 40864 1uohA 226 4.81e+01 d.211.1.1 99690 3il8 72 4.84e+01 1tvxA d.9.1.1 37356 1wojA 214 4.86e+01 1k3fA 253 4.89e+01 c.56.2.1 68105 1iukA 140 4.89e+01 c.2.1.8 83712 1difA 99 4.93e+01 1fmb b.50.1.1 26503 1vd4A 62 4.94e+01 1up9A 107 5.01e+01 3cyr 107 5.14e+01 3cyr a.138.1.1 19648 1o51A 114 5.16e+01 d.58.5.4 92480 1il8A 72 5.22e+01 1tvxA d.9.1.1 37365 1v2yA 105 5.25e+01 d.15.1.1 100275 1nf2A 268 5.32e+01 c.108.1.10 91849 1qo7A 394 5.34e+01 1qo7A c.69.1.11 34697 2apoA 357 5.36e+01 1an8 208 5.42e+01 1an8 b.40.2.2,d.15.6.1 25202,37791 1itpA 77 5.46e+01 d.58.3.2 66371 1rxyA 253 5.49e+01 c.56.2.1 98065 1n71A 180 5.61e+01 d.108.1.1 85370 1b87A 181 5.63e+01 1b87A d.108.1.1 40797 1axaA 99 5.64e+01 1hvc b.50.1.1 26633 1jidA 128 5.75e+01 d.201.1.1 66735 2gupA 292 5.82e+01 1b02A 279 5.86e+01 1bkpA d.117.1.1 41035 2eryA 172 5.86e+01 2ethA 154 5.86e+01 2b1xA 470 5.90e+01 1icwA 72 5.95e+01 1tvxA d.9.1.1 37357 2cvlA 124 6.01e+01 1yp1A 202 6.01e+01 1mmvB 419 6.03e+01 d.174.1.1 91318 1ak6 174 6.05e+01 1cof d.109.1.2 40865 1ys4A 354 6.07e+01 1tit 98 6.09e+01 1tit b.1.1.4 21716 1ockA 412 6.14e+01 c.117.1.1 86802 1hr6B 443 6.18e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 2c1lA 358 6.19e+01 1befA 181 6.30e+01 1befA b.47.1.3 26419 1a66A 178 6.34e+01 1a02N b.2.5.3 22441 1l8bA 190 6.43e+01 d.86.1.1 73683 1zejA 293 6.46e+01 1lx7A 253 6.46e+01 c.56.2.1 74329 1j6wA 175 6.52e+01 1j98A d.185.1.2 62663 7reqB 637 6.54e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1i1qA 520 6.59e+01 1qdlA d.161.1.1 61543 1jr3E 334 6.59e+01 a.80.1.1,c.37.1.20 63253,63254 1xmrA 243 6.59e+01 2b9eA 303 6.61e+01 1wj9A 211 6.64e+01 2bkrA 212 6.67e+01 1reqB 637 6.71e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1x0rA 249 6.74e+01 1c5cH 215 6.75e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1reqD 637 6.78e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1sqiA 393 6.80e+01 d.32.1.3,d.32.1.3 105914,105915 1w6uA 302 6.86e+01 1s2oA 244 6.87e+01 1aidA 99 7.02e+01 1fmb b.50.1.1 26591 2a9fA 398 7.05e+01 2f94F 350 7.05e+01 1cqzA 554 7.09e+01 1cr6B c.69.1.11,c.108.1.2 34689,43339 1wnyA 186 7.13e+01 1k38A 254 7.15e+01 e.3.1.1 84303 1wggA 96 7.19e+01 1ejhA 190 7.22e+01 1ejhA d.86.1.1 40147 1tc5A 194 7.26e+01 c.110.1.1 106752 1w41A 101 7.27e+01 1s72M 194 7.32e+01 d.12.1.2 105332 1yv5A 374 7.34e+01 1vqoM 195 7.37e+01 1gsoA 431 7.38e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1vlmA 219 7.41e+01 c.66.1.41 108836 1y3jA 77 7.42e+01 1j4wA 174 7.42e+01 d.51.1.1,d.51.1.1 71529,71530 1g65K 211 7.86e+01 d.153.1.4 41907 1rypL 212 7.87e+01 d.153.1.4 41880 1q67A 231 7.89e+01 b.55.1.7 95960 2b25A 336 7.89e+01 1zhsA 113 7.89e+01 1h7mA 102 8.02e+01 d.79.3.1 83485 1yq7A 374 8.11e+01 5gcnA 166 8.15e+01 1yghA d.108.1.1 40807 1dq3A 454 8.24e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1tw7A 99 8.27e+01 2ftwA 521 8.32e+01 1to3A 304 8.38e+01 c.1.10.1 107161 1heiA 451 8.43e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1gefA 123 8.43e+01 1gefA c.52.1.18 60465 1vp8A 201 8.49e+01 2ajrA 331 8.51e+01 1cr6B 554 8.54e+01 1cr6B c.69.1.11,c.108.1.2 34688,43338 1vl5A 260 8.56e+01 c.66.1.41 108720 1srb 21 8.58e+01 j.28.1.1 46201 1bkpA 278 8.59e+01 1bkpA d.117.1.1 41029 2cy0A 263 8.59e+01 1om4A 422 8.63e+01 d.174.1.1 87067 2fi0A 81 8.63e+01 2ao0A 324 8.67e+01 1h2rL 534 8.70e+01 1h2rL e.18.1.1 43298 2d5cA 263 8.72e+01 1qloA 34 8.73e+01 1qloA j.35.1.1 46281 1o1xA 155 8.74e+01 c.121.1.1 86553 1u6pA 56 8.75e+01 1sw6A 327 8.77e+01 1sw6A d.211.1.1 19176 2fulA 178 8.80e+01 1ur6B 52 8.82e+01 g.44.1.1 99812 1lokA 291 8.90e+01 c.56.5.4 78122 1n9lA 109 8.96e+01 d.110.3.6 85468 1cxqA 162 8.98e+01 1cxqA c.55.3.2 33621