# 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 2g03A 194 2.23e-21 2f6sA 201 1.18e-20 1d5rA 324 4.53e-03 1d5rA b.7.1.1,c.45.1.1 23181,32697 1f16A 192 1.48e-01 1f16A f.1.4.1 43400 1sxjE 354 3.04e-01 a.80.1.1,c.37.1.20 106089,106090 1j6wA 175 1.16e+00 1j98A d.185.1.2 62663 1j98A 157 1.73e+00 1j98A d.185.1.2 62755 1ppjD 241 2.17e+00 a.3.1.3,f.23.11.1 104258,104259 1be3D 241 2.50e+00 1be3D a.3.1.3,f.23.11.1 15955,43666 1nj4A 363 3.58e+00 b.105.1.1,e.3.1.1 80545,80546 1ea2A 131 4.16e+00 d.17.4.3 64860 1l4zB 136 4.21e+00 d.15.5.1 77704 1y5eA 169 4.38e+00 1l4dB 122 4.41e+00 d.15.5.1 77684 1y71A 130 5.01e+00 1bccD 241 5.17e+00 1be3D a.3.1.3,f.23.11.1 15959,43698 2bgxA 261 5.76e+00 2bh7A 261 5.79e+00 1oh0A 131 6.48e+00 d.17.4.3 87004 1gadO 330 7.10e+00 1dssG c.2.1.3,d.81.1.1 29950,39865 1u00A 227 7.15e+00 1exrA 148 8.05e+00 1cll a.39.1.5 17299 1h5wA 309 8.15e+00 e.27.1.1 65635 1opy 131 8.27e+00 1opy d.17.4.3 38113 1osa 148 8.58e+00 1cll a.39.1.5 17300 1pu1A 94 9.45e+00 d.266.1.1 104307 1yydA 357 9.47e+00 1ijgA 309 9.48e+00 1fouA e.27.1.1 62493 1z6fA 363 1.01e+01 1nzoA 363 1.02e+01 b.105.1.1,e.3.1.1 92383,92384 1noyA 388 1.02e+01 1clqA c.55.3.5 33713 1o12A 376 1.20e+01 b.92.1.5,c.1.9.10 80758,80759 1dmmA 131 1.21e+01 1opy d.17.4.3 38114 1u24A 337 1.35e+01 1euvA 221 1.38e+01 1euvA d.3.1.7 37133 1mc2A 122 1.38e+01 a.133.1.2 74622 1mn1 357 1.52e+01 1arv a.93.1.1 18667 1zyeA 220 1.54e+01 1x0lA 333 1.57e+01 1m1nA 491 1.61e+01 c.92.2.3 78417 1y1xA 191 1.63e+01 2minA 491 1.67e+01 1qguA c.92.2.3 35609 1n1bA 549 1.72e+01 a.102.4.1,a.128.1.3 79799,79800 1phnA 162 1.76e+01 1cpcA a.1.1.3 15641 1avoB 140 1.76e+01 1avoB 1nozA 388 1.81e+01 1clqA c.55.3.5 33715 1j1iA 296 1.82e+01 c.69.1.10 83977 2he7A 283 1.90e+01 1jflA 228 1.90e+01 c.78.2.1,c.78.2.1 71656,71657 1ezvD 245 1.95e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1qysA 106 2.01e+01 k.41.1.1 96603 1wddS 128 2.03e+01 1kyoD 248 2.04e+01 a.3.1.3,f.23.11.1 73254,73255 2d0sA 79 2.13e+01 1yg9A 330 2.19e+01 1ow4A 129 2.19e+01 a.39.2.1 93628 1fouA 309 2.20e+01 1fouA e.27.1.1 43364 1fqvJ 149 2.22e+01 1fqvD a.157.1.1,d.42.1.1 19266,38670 1kb9D 246 2.28e+01 a.3.1.3,f.23.11.1 77317,77318 1zwpA 121 2.31e+01 2g58A 121 2.31e+01 1fv0A 121 2.31e+01 a.133.1.2 70147 1kpmA 121 2.31e+01 a.133.1.2 72844 1sqzA 121 2.33e+01 a.133.1.2 98975 1tk4A 121 2.33e+01 a.133.1.2 107073 2fiyA 309 2.35e+01 2bjfA 329 2.36e+01 1tj9A 121 2.37e+01 a.133.1.2 107015 2f1nA 262 2.44e+01 1ht6A 405 2.44e+01 b.71.1.1,c.1.8.1 83629,83630 2astA 159 2.44e+01 2shpA 525 2.46e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1fqvD 149 2.50e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1af5 126 2.51e+01 1bp7A d.95.2.1 40572 1sr4B 261 2.53e+01 d.151.1.1 105949 1hd8A 363 2.57e+01 b.105.1.1,e.3.1.1 65803,65804 1mnp 357 2.60e+01 1arv a.93.1.1 18668 1brlA 355 2.62e+01 1lucA c.1.16.1 29553 1v9vA 114 2.68e+01 1t6eX 381 2.68e+01 b.50.1.2 106564 1z6bA 154 2.75e+01 1w98B 283 2.79e+01 1m5yA 408 2.80e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1q1lA 401 2.86e+01 d.258.1.1 95591 1yuzA 202 2.89e+01 1pba 81 2.92e+01 1pytA d.58.3.1 39067 2hbjA 410 3.00e+01 1xnfA 275 3.01e+01 1f7uA 607 3.10e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1eno 312 3.23e+01 1enp c.2.1.2 29905 1sbyA 254 3.26e+01 1bif 469 3.35e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1b16A 254 3.37e+01 1b16A c.2.1.2 29875 1u1zA 168 3.38e+01 d.38.1.6 107602 2sqcA 631 3.38e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1nrwA 288 3.40e+01 c.108.1.10 86128 1nepA 130 3.46e+01 b.1.18.7 80440 1b3rA 431 3.47e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1t1gA 364 3.50e+01 c.41.1.2 106246 3bifA 468 3.51e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1gt91 357 3.54e+01 2bifA 469 3.55e+01 1bif c.37.1.7,c.60.1.4 31963,34009 2b3oA 532 3.58e+01 1a4uA 254 3.70e+01 1b16A c.2.1.2 29878 1d0iA 156 3.74e+01 2dhqA c.23.13.1 31383 2bsjA 133 3.80e+01 2cwoA 197 3.82e+01 3minC 491 3.87e+01 1qguA c.92.2.3 35607 1gtzA 156 3.93e+01 c.23.13.1 70539 1bvwA 360 3.93e+01 1bvwA c.6.1.1 30668 1oc7A 364 3.93e+01 c.6.1.1 86794 1ocnA 362 3.97e+01 c.6.1.1 86808 2bvwA 362 3.98e+01 1bvwA c.6.1.1 30666 1g9zA 152 4.00e+01 1bp7A d.95.2.1 60408 2coeA 120 4.02e+01 1ko7A 314 4.17e+01 c.98.2.1,c.91.1.2 72797,72798 1p27B 106 4.18e+01 d.58.7.1 93908 1js3A 486 4.20e+01 c.67.1.6 67215 1k92A 455 4.22e+01 c.26.2.1,d.210.1.1 68325,68326 2f02A 323 4.24e+01 1qdbA 473 4.39e+01 1qdbA a.138.1.3 19688 1fgyA 127 4.40e+01 1faoA b.55.1.1 26976 1ka2A 499 4.42e+01 d.92.1.5 77305 2cw9A 194 4.46e+01 1bp7A 152 4.49e+01 1bp7A d.95.2.1 40568 1oheA 348 4.51e+01 c.45.1.1,c.45.1.1 87013,87014 2ggcA 263 4.54e+01 1nseA 444 4.62e+01 1nseA d.174.1.1 42534 1gz6A 319 4.67e+01 c.2.1.2 76410 1wiwA 290 4.68e+01 2awdA 323 4.81e+01 1w9aA 147 4.86e+01 1d4fA 431 4.89e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1d0cA 444 4.96e+01 d.174.1.1 64769 1ed5A 444 4.99e+01 1nseA d.174.1.1 42530 5nseA 444 5.07e+01 d.174.1.1 74644 2btvA 901 5.11e+01 2btvA e.28.1.1 43376 2prf 125 5.19e+01 3nul d.110.1.1 40887 1t9iA 163 5.25e+01 1d1vA 444 5.26e+01 1nseA d.174.1.1 59101 1xwfA 431 5.36e+01 2bhoA 130 5.45e+01 1bk6A 422 5.47e+01 1bk5A a.118.1.1 19133 2hdhA 293 5.48e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 1uz5A 402 5.50e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2bjkA 516 5.51e+01 1fhvA 323 5.51e+01 1fhuA c.1.11.2,d.54.1.1 29235,38879 1flzA 228 5.64e+01 3eugA c.18.1.1 31027 1aerA 205 5.70e+01 1aerA d.166.1.1 42249 1f0yA 302 5.70e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1r7lA 110 5.72e+01 d.277.1.1 104837 1uzbA 516 5.76e+01 c.82.1.1 100220 1d7oA 297 5.80e+01 1enp c.2.1.2 29907 1qi6A 475 5.86e+01 1euhA c.82.1.1 35373 2iw2A 494 5.99e+01 1mvwC 147 6.19e+01 i.15.1.1 79525 1o1fC 147 6.19e+01 i.15.1.1 80997 1xzoA 174 6.24e+01 1dw0A 112 6.24e+01 1dw0A a.3.1.1 15911 1xxoA 147 6.30e+01 1bwsA 321 6.32e+01 1bsvA c.2.1.2 29812 1e7rA 321 6.38e+01 1bsvA c.2.1.2 29808 1z2nX 324 6.42e+01 1e2aA 105 6.43e+01 1e2aA a.7.2.1 16322 1e6uA 321 6.50e+01 1bsvA c.2.1.2 29805 1gfsA 321 6.52e+01 c.2.1.2 29811 2e2aA 105 6.52e+01 a.7.2.1 88499 1b85A 351 6.52e+01 1arv a.93.1.1 18581 1bsvA 321 6.52e+01 1bsvA c.2.1.2 29809 1cwyA 500 6.55e+01 1cwyA c.1.8.1 28789 1pj5A 830 6.57e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1enp 312 6.67e+01 1enp c.2.1.2 29906 1od2A 805 6.70e+01 c.14.1.4,c.14.1.4 86821,86822 1o1zA 234 6.70e+01 c.1.18.3 86555 1qhlA 227 6.72e+01 1qhlA c.37.1.12 32382 1wa5B 530 6.74e+01 1ar1B 298 6.79e+01 2occB b.6.1.2,f.17.2.1 23037,43619 2aq6A 147 6.85e+01 1eswA 500 6.86e+01 1cwyA c.1.8.1 59500 2bshA 125 6.89e+01 1i36A 264 6.94e+01 a.100.1.8,c.2.1.6 71108,71109 1w2wA 211 7.03e+01 c.124.1.5 109130 1xdzA 240 7.10e+01 1qcrD 75 7.11e+01 1qcrD a.3.1.3,f.23.11.1 15956,43674 2apoA 357 7.14e+01 1ktbA 405 7.17e+01 b.71.1.1,c.1.8.1 72960,72961 1akz 223 7.25e+01 3eugA c.18.1.1 31007 1sspE 223 7.26e+01 3eugA c.18.1.1 31009 1euhA 475 7.30e+01 1euhA c.82.1.1 35369 1ifqA 138 7.34e+01 1ifqA d.110.4.1 62350 1ymtA 246 7.40e+01 1uc8A 280 7.40e+01 c.30.1.6,d.142.1.7 99165,99166 1au1A 166 7.45e+01 1ifa a.26.1.3 16889 1wmdA 434 7.49e+01 b.18.1.20,c.41.1.1 109408,109409 1s3cA 141 7.52e+01 1vf1A 229 7.63e+01 1pinA 163 7.64e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1j9bA 141 7.67e+01 c.47.1.12 66459 1sqc 631 7.73e+01 2sqcA a.102.4.2,a.102.4.2 18858,18859 2fi9A 128 7.77e+01 2aukA 190 7.88e+01 2mnr 357 7.93e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1diwA 441 7.98e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 3pbgA 468 8.01e+01 1e70M c.1.8.4 28951 1r2aA 46 8.04e+01 1r2aA a.31.1.1 16995 1f5nA 592 8.10e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1hf8A 289 8.14e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1hl2A 297 8.14e+01 c.1.10.1 83581 1euiA 228 8.16e+01 3eugA c.18.1.1 31028 1iqsA 88 8.17e+01 d.214.1.1 71278 1pa4A 116 8.22e+01 d.52.7.1 94409 1j8bA 112 8.31e+01 d.222.1.1 77101 1d0hA 469 8.37e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1iqoA 88 8.44e+01 d.214.1.1 71277 1vkcA 158 8.47e+01 1ykjA 394 8.47e+01 1aerB 195 8.49e+01 1aerA d.166.1.1 42250 1dvoA 152 8.49e+01 1dvoA a.136.1.1 19623 1cr0A 296 8.49e+01 1cr1A c.37.1.11 32287 1fdyA 297 8.50e+01 1nal3 c.1.10.1 29071 1vkmA 297 8.53e+01 c.138.1.1 108670 1rro 108 8.54e+01 1a75A a.39.1.4 17195 1b80A 351 8.68e+01 1arv a.93.1.1 18579 1ly7A 121 8.70e+01 d.82.2.1 74339 1f76A 336 8.75e+01 c.1.4.1 76160 1rm4A 337 8.75e+01 c.2.1.3,d.81.1.1 105000,105001 1ee4A 423 8.78e+01 1ee4A a.118.1.1 19128 1fit 147 8.80e+01 1fit d.13.1.1 37499 1vjkA 98 8.89e+01 d.15.3.1 108631 1a7aA 432 8.96e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364