# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1pjqA 457 7.18e-33 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1cbf 285 2.67e-30 1cbf c.90.1.1 35587 2cbf 234 2.87e-30 1cbf c.90.1.1 35588 1vhvA 268 3.93e-26 c.90.1.1 -8619 2pfkA 320 1.83e-02 3pfk c.89.1.1 35577 1pfkA 320 2.31e-02 3pfk c.89.1.1 35575 4pfk 319 3.11e-02 3pfk c.89.1.1 35582 1kzhA 555 4.47e-02 c.89.1.1 73361 3pfk 319 5.70e-02 3pfk c.89.1.1 35581 1b5tA 275 1.07e-01 1b5tA c.1.23.1 29676 1fsz 372 1.24e-01 1fsz c.32.1.1 31750 d.79.2.1 39802 6pfkA 319 1.74e-01 3pfk c.89.1.1 35583 1cv2A 296 2.84e-01 1bn6A c.69.1.8 34680 1iz7A 295 2.98e-01 c.69.1.8 76982 1mj5A 302 3.26e-01 c.69.1.8 -8326 1e3pA 757 4.21e-01 1e3hA a.4.9.1 16258 b.40.4.5 25328 d.14.1.4 37574 d.14.1.4 37575 d.52.3.1 38811 d.101.1.1 40697 d.101.1.1 40698 1oi7A 288 5.76e-01 c.2.1.8 87049 c.23.4.1 87050 1nrhX 472 5.90e-01 c.2.1.5 -5944 d.162.1.2 -11511 1ofuA 320 6.95e-01 c.32.1.1 86972 d.79.2.1 86973 1vkfA 188 7.80e-01 1e3hA 757 9.57e-01 1e3hA a.4.9.1 16257 d.14.1.4 37572 d.14.1.4 37573 d.52.3.1 38810 d.101.1.1 40695 d.101.1.1 40696 1ebbA 202 2.18e+00 c.60.1.1 64900 1ui0A 205 2.28e+00 c.18.1.2 -6328 5rubA 490 2.83e+00 1burA c.1.14.1 29382 d.58.9.1 39288 1v93A 296 3.00e+00 c.1.23.1 -5654 1rusA 490 3.00e+00 1burA c.1.14.1 29388 d.58.9.1 39294 1h2eA 207 3.15e+00 c.60.1.1 70857 1bgf 124 3.18e+00 1bgf a.90.1.1 18537 1kq3A 376 3.39e+00 e.22.1.2 68790 1uohA 226 4.04e+00 d.211.1.1 -9572 1mwmA 320 4.07e+00 c.55.1.1 79580 c.55.1.1 79581 1vjgA 218 4.61e+00 unknown_sccs -6447 1qp8A 303 5.15e+00 1qp8A c.2.1.4 30092 c.23.12.1 31352 1fobA 334 5.37e+00 c.1.8.3 83255 2rusB 490 5.41e+00 1burA c.1.14.1 29385 d.58.9.1 39291 1toaA 313 5.69e+00 1toaA c.92.2.2 35598 6dfr 159 5.79e+00 1vdrA c.71.1.1 34874 1draA 159 5.94e+00 1vdrA c.71.1.1 34831 1rlkA 117 6.57e+00 unknown_sccs -7526 1t2aA 375 7.04e+00 c.2.1.2 -5764 1bqcA 302 7.19e+00 1bqcA c.1.8.3 28831 1k75A 434 7.70e+00 c.82.1.2 68253 1mtzA 293 7.76e+00 c.69.1.7 79467 1ra9 159 8.04e+00 1vdrA c.71.1.1 34820 1k0fA 277 8.12e+00 c.92.2.2 71974 1r0wA 286 8.38e+00 c.37.1.12 -7158 1aw5 326 8.60e+00 1b4kA c.1.10.3 29181 1i7qB 193 8.78e+00 1qdlB c.23.16.1 61902 1iv0A 98 9.20e+00 unknown_sccs -7667 1mkyA 439 1.02e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1l3iA 192 1.04e+01 c.66.1.22 77676 1s72O 116 1.04e+01 1rvkA 382 1.07e+01 c.1.11.2 -5568 d.54.1.1 -9826 1pvyA 227 1.10e+01 d.115.1.2 -10937 1d0vA 356 1.11e+01 1d0vA c.39.1.1 32476 1jj2N 115 1.12e+01 1ffkL c.12.1.1 63099 1spxA 278 1.13e+01 c.2.1.2 -5870 1jflA 228 1.13e+01 c.78.2.1 71656 c.78.2.1 71657 1repC 251 1.14e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1l5oA 356 1.14e+01 c.39.1.1 77711 1gnxA 479 1.20e+01 c.1.8.4 76241 1je8A 82 1.22e+01 a.4.6.2 77108 1kvs 338 1.23e+01 1xel c.2.1.2 29799 1iciA 256 1.25e+01 1iciA c.31.1.5 62266 1hfuA 503 1.25e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1pv5A 264 1.26e+01 unknown_sccs -10182 1d0sA 356 1.27e+01 1d0vA c.39.1.1 32477 1g0uI 205 1.27e+01 d.153.1.4 41891 1tr1A 447 1.27e+01 1e70M c.1.8.4 28957 1qs0B 338 1.28e+01 1qs0B c.36.1.7 31830 c.48.1.2 33103 1udb 338 1.30e+01 1xel c.2.1.2 29787 1krhA 338 1.30e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1jh8A 356 1.31e+01 c.39.1.1 63052 1p5jA 372 1.33e+01 1skyB 502 1.35e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1j3vA 289 1.38e+01 a.100.1.1 -1303 c.2.1.6 -5947 1snnA 227 1.38e+01 1qydA 313 1.41e+01 c.2.1.2 -5786 1e2b 106 1.42e+01 1iibA c.44.2.1 32650 1e4fT 419 1.46e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1o4wA 147 1.50e+01 c.120.1.1 86629 1upaA 573 1.51e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1a65A 504 1.52e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1l9gA 192 1.53e+01 c.18.1.2 84568 1rypJ 204 1.56e+01 d.153.1.4 41878 2udpA 338 1.57e+01 1xel c.2.1.2 29791 1vkmA 297 1.58e+01 1senA 164 1.65e+01 1hd7A 318 1.67e+01 1bix d.151.1.1 41780 1iibA 106 1.69e+01 1iibA c.44.2.1 32648 1mv8A 436 1.80e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1xel 338 1.80e+01 1xel c.2.1.2 29786 1ek0A 170 1.81e+01 1ctqA c.37.1.8 32076 1m3uA 264 1.81e+01 c.1.12.8 84784 1mw7A 240 1.85e+01 e.39.1.1 79557 1vhnA 318 1.85e+01 c.1.4.1 -5209 1udc 338 1.85e+01 1xel c.2.1.2 29785 1eluB 390 1.90e+01 1elqA c.67.1.3 34435 1bf6A 291 1.94e+01 1pscA c.1.9.3 29065 1fj2A 232 2.00e+01 1auoA c.69.1.14 34720 1k9vF 201 2.05e+01 c.23.16.1 68365 1l6rA 227 2.05e+01 c.108.1.10 77768 1cei 94 2.06e+01 1cei a.28.2.1 16939 1m2kA 249 2.10e+01 c.31.1.5 84754 1tufA 434 2.12e+01 1okgA 373 2.14e+01 c.46.1.2 -7367 c.46.1.2 -7368 unknown_sccs -9494 1e4iA 447 2.19e+01 1e70M c.1.8.4 59225 1s6yA 450 2.21e+01 1hv8A 367 2.21e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1jc7A 131 2.22e+01 1jc7A b.40.3.2 62873 1khcA 147 2.22e+01 b.34.9.2 68608 1kaeA 434 2.23e+01 c.82.1.2 72247 1dhpA 292 2.28e+01 1dhpA c.1.10.1 29097 1ll7A 392 2.31e+01 c.1.8.5 78085 d.26.3.1 78086 1esc 306 2.32e+01 1esc c.23.10.1 31334 1q7sA 117 2.32e+01 unknown_sccs -7522 1d2kA 392 2.35e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1iu9A 111 2.37e+01 c.78.2.1 -8500 1tn3 137 2.47e+01 1htn d.169.1.1 42423 1nnlA 225 2.51e+01 c.108.1.4 85906 1qopA 268 2.55e+01 2tysA c.1.2.4 28570 1eluA 390 2.58e+01 1elqA c.67.1.3 34434 1qv9A 283 2.58e+01 unknown_sccs -6888 1auk 489 2.58e+01 1auk c.76.1.2 35030 1oasA 322 2.59e+01 1oasA c.79.1.1 35293 1k30A 368 2.59e+01 c.112.1.1 68067 1dtwB 342 2.60e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1ns5A 155 2.64e+01 c.116.1.3 80705 1lvl 458 2.73e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1pwhA 327 2.74e+01 c.79.1.1 -8524 1rw2A 152 2.74e+01 unknown_sccs -1645 1pbtA 244 2.79e+01 unknown_sccs -6866 1ctn 540 2.79e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1rxxA 421 2.84e+01 unknown_sccs -10982 1jpmA 366 2.84e+01 c.1.11.2 67031 d.54.1.1 67032 1prtD 110 2.91e+01 1bcpD b.40.2.1 25128 1gpwB 201 2.97e+01 c.23.16.1 65461 1fjgB 256 2.98e+01 1fjfB c.23.15.1 31400 1eu8A 409 2.98e+01 1eu8A c.94.1.1 59502 1unkA 87 3.02e+01 1cei a.28.2.1 16935 7timA 247 3.12e+01 1amk c.1.1.1 28457 1q1rA 431 3.12e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1a1s 314 3.13e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1j2rA 199 3.20e+01 unknown_sccs -6799 1v1rB 342 3.29e+01 3rabA 169 3.48e+01 1ctqA c.37.1.8 32018 1b0pA 1231 3.50e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 2tmdA 729 3.55e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1skyE 473 3.59e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1o4sA 389 3.63e+01 c.67.1.1 86620 1khvA 516 3.63e+01 e.8.1.4 68627 1dapA 320 3.64e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1db3A 372 3.64e+01 1db3A c.2.1.2 29813 1i0dA 332 3.65e+01 1pscA c.1.9.3 61487 1c3oB 382 3.80e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1eijA 80 3.80e+01 1eijA a.5.6.1 16298 1jb3A 131 3.81e+01 1jc7A b.40.3.2 62833 1g6wA 261 3.85e+01 1hqoA a.45.1.1 17751 c.47.1.5 33045 1olsB 342 3.87e+01 c.36.1.7 -6919 c.48.1.2 -7529 1a8q 274 3.88e+01 1brt c.69.1.12 34702 1ee4A 423 3.97e+01 1ee4A a.118.1.1 19128