# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1pw4A 451 1.88e-31 f.38.1.1 95198 2gfpA 375 8.12e-29 1pv6A 417 5.76e-22 f.38.1.2 95151 2cfqA 417 9.91e-18 1kplA 473 1.17e-02 f.20.1.1 68782 1otsA 465 9.28e-02 f.20.1.1 87415 1jb0A 755 1.26e-01 1jb0A f.29.1.1 62820 1o7xC 377 4.15e-01 a.103.1.1 81173 2a65A 519 5.38e-01 1rfzA 168 1.01e+00 a.195.1.1 97411 1o7xD 377 1.04e+00 a.103.1.1 81174 1kpkA 473 1.10e+00 f.20.1.1 68776 1o7xB 377 1.42e+00 a.103.1.1 81172 2fm9A 215 1.42e+00 2bs3C 256 1.59e+00 1o0wA 252 1.65e+00 a.149.1.1 80751 d.50.1.1 80752 1i5pA 633 1.96e+00 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1qlaC 256 2.37e+00 1qlaC f.21.2.1 43722 1rxqA 178 3.16e+00 a.213.1.1 105118 1i3dA 146 3.23e+00 a.1.1.2 61587 1phnA 162 3.34e+00 1cpcA a.1.1.3 15641 1mznA 240 3.49e+00 a.123.1.1 79704 1u7gA 385 3.51e+00 f.44.1.1 107723 2iu1A 208 3.52e+00 1v96A 149 3.59e+00 1wa5B 530 3.64e+00 2at9 247 4.11e+00 1c3wA f.13.1.1 43427 2myo 118 4.78e+00 2myo d.211.1.1 19175 1myo 118 5.08e+00 2myo d.211.1.1 19174 1i4dA 224 5.68e+00 h.4.7.1 61682 2fd5A 180 5.91e+00 1yarO 237 6.55e+00 2h8fB 146 6.61e+00 1xl7A 612 6.80e+00 1uetA 437 6.97e+00 a.160.1.3 99272 d.218.1.7 99273 d.58.16.2 99274 1dgkN 917 6.99e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1yewB 247 7.28e+00 1i4tB 224 7.34e+00 h.4.7.1 61730 1t9xA 1049 7.39e+00 1y82A 157 7.44e+00 1nw3A 416 7.79e+00 c.66.1.31 86288 1ls1A 295 7.95e+00 a.24.13.1 78170 c.37.1.10 78171 1jpnA 296 8.11e+00 a.24.13.1 67039 c.37.1.10 67040 1ng1 294 8.84e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 1czaN 917 9.14e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 2j0wA 449 9.41e+00 1nt4A 391 9.45e+00 c.60.1.2 92102 1ffh 294 9.61e+00 1ng1 a.24.13.1 16960 c.37.1.10 32271 2ng1 293 9.85e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1a8i 842 9.98e+00 1a8i c.87.1.4 35490 1oafA 261 1.00e+01 a.93.1.1 86734 2gifA 1057 1.02e+01 1i4lA 224 1.03e+01 1i49A h.4.7.1 61718 1r89A 437 1.03e+01 a.160.1.3 97221 d.218.1.7 97222 d.58.16.2 97223 1hkbA 917 1.04e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1g5yA 238 1.05e+01 1lbd a.123.1.1 60294 1go4E 100 1.07e+01 h.1.22.1 70296 1hkcA 917 1.07e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1oyeA 1049 1.11e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1s35A 214 1.18e+01 a.7.1.1 98420 a.7.1.1 98421 1av6A 289 1.20e+01 3mag c.66.1.25 34218 1foeA 377 1.21e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1a59 378 1.22e+01 1aj8A a.103.1.1 18902 2c5kT 95 1.23e+01 2h79A 269 1.26e+01 1swxA 209 1.29e+01 a.224.1.1 106075 2ghcX 261 1.30e+01 169lA 164 1.43e+01 1l92 d.2.1.3 36963 1lbd 282 1.45e+01 1lbd a.123.1.1 19279 1is2A 661 1.47e+01 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1pf4A 582 1.48e+01 c.37.1.12 88052 f.37.1.1 88053 1w2yA 229 1.49e+01 a.204.1.1 109140 1qq8A 214 1.50e+01 1qq8A 3mag 307 1.57e+01 3mag c.66.1.25 34205 1y9qA 192 1.67e+01 1kxpD 458 1.72e+01 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1ihbA 162 1.74e+01 1bd8 d.211.1.1 19161 1a5e 156 1.75e+01 1bd8 d.211.1.1 19169 1bgc 174 1.75e+01 1bgc a.26.1.1 16822 1rzhM 307 1.76e+01 f.26.1.1 98165 1liaA 164 1.77e+01 1cpcA a.1.1.3 15661 1aijM 307 1.78e+01 6prcM f.26.1.1 43462 1gxyA 226 1.81e+01 d.166.1.3 76380 1bccE 196 1.86e+01 1rie b.33.1.1 24431 f.23.12.1 43699 1aijS 301 1.89e+01 6prcM f.26.1.1 43465 1qhaA 917 1.90e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1wyuA 438 1.91e+01 1qkrA 188 2.00e+01 1qkrA a.24.9.1 16628 1spgB 147 2.04e+01 1cg5B a.1.1.2 15588 2gd5A 179 2.08e+01 1zs3A 182 2.13e+01 1wpgA 994 2.15e+01 1n45A 233 2.16e+01 a.132.1.1 79981 1unlD 208 2.17e+01 1c3wA 222 2.18e+01 1c3wA f.13.1.1 43405 1f88A 348 2.18e+01 1f88A f.13.1.2 43429 1dm5A 315 2.24e+01 1avc a.65.1.1 18186 1y01A 102 2.25e+01 1keyA 235 2.28e+01 a.118.16.1 72389 1tfjA 219 2.32e+01 1adt 356 2.32e+01 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 2d5xB 146 2.34e+01 1xjzA 233 2.38e+01 1a0p 290 2.39e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1agrE 205 2.42e+01 1agrE a.91.1.1 18538 1colA 204 2.57e+01 1a87 f.1.1.1 43378 1i1gA 141 2.59e+01 a.4.5.32 65982 d.58.4.2 65983 1ktpA 162 2.61e+01 a.1.1.3 72990 1k87A 669 2.65e+01 a.176.1.1 77286 c.1.23.2 77287 1iwhB 146 2.66e+01 a.1.1.2 76883 1t5oA 351 2.69e+01 c.124.1.5 106459 1wbeA 209 2.71e+01 1yucA 255 2.72e+01 1anv 356 2.74e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1axn 323 2.75e+01 1avc a.65.1.1 18149 2csgA 424 2.77e+01 1psdA 409 2.88e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1r71A 178 2.88e+01 a.4.14.1 104823 2at2A 300 2.89e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1n0qA 93 2.98e+01 k.37.1.1 79754 1aeiA 315 2.99e+01 1avc a.65.1.1 18180 1hx1B 114 3.03e+01 1hx1B a.7.7.1 61350 1s5lB 510 3.04e+01 2gnxA 365 3.06e+01 1aii 323 3.09e+01 1avc a.65.1.1 18150 1fftB 315 3.12e+01 1cyx b.6.1.2 23025 f.17.2.1 43628 1h4lD 147 3.18e+01 a.74.1.1 70873 1e1qG 272 3.23e+01 1e1qG c.49.2.1 33162 1lfkA 398 3.24e+01 a.104.1.1 77926 1a6i 217 3.26e+01 2tct a.4.1.9 16066 a.121.1.1 19243 1f76A 336 3.27e+01 c.1.4.1 76160 1mtpA 323 3.28e+01 e.1.1.1 85107 1lfpA 249 3.30e+01 e.39.1.1 73885 1b5l 172 3.30e+01 1b5l a.26.1.3 16900 1jboA 162 3.34e+01 a.1.1.3 84150 1eztA 166 3.38e+01 1agrE a.91.1.1 18541 1vgmA 378 3.50e+01 1sesA 421 3.59e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1my6A 199 3.62e+01 a.2.11.1 85232 d.44.1.1 85233 1ann 318 3.62e+01 1avc a.65.1.1 18151 1kgbA 231 3.63e+01 f.13.1.1 68581 1z2iA 358 3.63e+01 1sgmA 191 3.64e+01 a.4.1.9 105537 a.121.1.1 105538 2c2nA 339 3.65e+01 1hzxA 349 3.67e+01 1f88A f.13.1.2 61466 1k3yA 221 3.67e+01 a.45.1.1 77245 c.47.1.5 77246 1vlqA 337 3.68e+01 c.69.1.25 108848 2fb5A 205 3.69e+01 1gkxA 388 3.79e+01 a.29.5.1 65266 d.122.1.4 65267 1g2nA 264 3.81e+01 1lbd a.123.1.1 60227 1pii 452 3.84e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1h5uA 842 3.89e+01 1a8i c.87.1.4 60655 1bmfG 272 3.96e+01 1e1qG c.49.2.1 33160 1ppjG 81 3.98e+01 f.23.13.1 104263 1glm 470 3.98e+01 1ayx a.102.1.1 18821