# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1.52e-27 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1cbf 285 8.15e-25 1cbf c.90.1.1 35587 2cbf 234 2.31e-24 1cbf c.90.1.1 35588 1vhvA 268 1.87e-21 c.90.1.1 -8619 3pfk 319 4.86e-03 3pfk c.89.1.1 35581 4pfk 319 7.31e-03 3pfk c.89.1.1 35582 6pfkA 319 7.67e-03 3pfk c.89.1.1 35583 1pfkA 320 7.91e-03 3pfk c.89.1.1 35575 2pfkA 320 2.41e-02 3pfk c.89.1.1 35577 1kq3A 376 6.05e-02 e.22.1.2 68790 1ofuA 320 9.58e-02 c.32.1.1 86972 d.79.2.1 86973 1fsz 372 1.21e-01 1fsz c.32.1.1 31750 d.79.2.1 39802 1mj5A 302 2.93e-01 c.69.1.8 -8326 1cv2A 296 3.18e-01 1bn6A c.69.1.8 34680 1qv9A 283 3.67e-01 unknown_sccs -6888 1iz7A 295 3.79e-01 c.69.1.8 76982 1mwmA 320 4.64e-01 c.55.1.1 79580 c.55.1.1 79581 1g60A 260 4.73e-01 c.66.1.11 70151 1pwhA 327 6.92e-01 c.79.1.1 -8524 1kzhA 555 9.99e-01 c.89.1.1 73361 1rvkA 382 1.05e+00 c.1.11.2 -5568 d.54.1.1 -9826 1jq5A 370 1.27e+00 e.22.1.2 67084 1qs0B 338 1.45e+00 1qs0B c.36.1.7 31830 c.48.1.2 33103 1djnA 729 1.95e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 2tmdA 729 2.02e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1p5jA 372 2.05e+00 1ks9A 291 2.05e+00 a.100.1.7 68857 c.2.1.6 68858 1iuqA 367 2.10e+00 c.112.1.1 -8440 1bfd 528 2.25e+00 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1b5tA 275 2.57e+00 1b5tA c.1.23.1 29676 1e3pA 757 2.89e+00 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 1e3hA 757 2.90e+00 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 1fobA 334 2.95e+00 c.1.8.3 83255 1okgA 373 3.12e+00 c.46.1.2 -7367 c.46.1.2 -7368 unknown_sccs -9494 1jclA 260 3.13e+00 c.1.10.1 66501 1i7qB 193 3.24e+00 1qdlB c.23.16.1 61902 1c3oB 382 3.37e+00 1c3oB c.8.3.1 30744 c.23.16.1 31421 1jcjA 260 3.48e+00 c.1.10.1 66499 1p1xA 260 3.66e+00 1ig8A 486 3.89e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 2ak3A 226 4.03e+00 1zin c.37.1.1 31892 g.41.2.1 45193 1oi7A 288 4.06e+00 c.2.1.8 87049 c.23.4.1 87050 1b6g 310 4.12e+00 1b6g c.69.1.8 34661 1e3dA 266 4.48e+00 2frvA e.19.1.1 59188 1j97A 211 4.55e+00 1f5sA c.108.1.4 62753 1ede 310 5.01e+00 1b6g c.69.1.8 34662 1ek0A 170 5.04e+00 1ctqA c.37.1.8 32076 1k30A 368 5.04e+00 c.112.1.1 68067 1jh8A 356 5.25e+00 c.39.1.1 63052 1jdc 429 5.42e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 1l5oA 356 5.42e+00 c.39.1.1 77711 1j0aA 325 5.45e+00 c.79.1.1 83871 1d0sA 356 5.45e+00 1d0vA c.39.1.1 32477 1o94A 729 5.71e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1d0vA 356 5.75e+00 1d0vA c.39.1.1 32476 1f5sA 211 5.81e+00 1f5sA c.108.1.4 59656 1dqsA 393 6.26e+00 1dqsA e.22.1.1 43347 1k9vF 201 6.71e+00 c.23.16.1 68365 1jqaA 370 6.82e+00 e.22.1.2 67085 1a8q 274 7.54e+00 1brt c.69.1.12 34702 1vkmA 297 7.55e+00 1a05A 358 8.08e+00 1cnzA c.77.1.1 35059 1l7mA 211 8.08e+00 c.108.1.4 73664 1uohA 226 8.41e+00 d.211.1.1 -9572 1v4vA 376 8.68e+00 c.87.1.3 -8583 1gpwB 201 9.11e+00 c.23.16.1 65461 1vgvA 384 9.14e+00 c.87.1.3 -8575 1gcyA 527 9.49e+00 1jdc b.71.1.1 27788 c.1.8.1 28775 1yveJ 524 9.85e+00 1qmgA a.100.1.2 18790 c.2.1.6 30187 1qmgA 524 1.01e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1dtwB 342 1.02e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1oasA 322 1.02e+01 1oasA c.79.1.1 35293 1skyE 473 1.04e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1r0wA 286 1.06e+01 c.37.1.12 -7158 1ui0A 205 1.07e+01 c.18.1.2 -6328 1upaA 573 1.07e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1f0nA 285 1.10e+01 1dqyA c.69.1.3 34636 1i2oA 316 1.11e+01 1onrA c.1.10.1 61574 1ei6A 406 1.11e+01 unknown_sccs -8436 1k0fA 277 1.12e+01 c.92.2.2 71974 1m3uA 264 1.13e+01 c.1.12.8 84784 1qydA 313 1.14e+01 c.2.1.2 -5786 1qp8A 303 1.16e+01 1qp8A c.2.1.4 30092 c.23.12.1 31352 1e8cA 498 1.17e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 7ahlA 293 1.20e+01 7ahlA f.6.1.1 43812 1ma3A 253 1.27e+01 c.31.1.5 78883 1iciA 256 1.29e+01 1iciA c.31.1.5 62266 1ebbA 202 1.31e+01 c.60.1.1 64900 1onrA 316 1.35e+01 1onrA c.1.10.1 29169 1rcuA 195 1.38e+01 unknown_sccs -7279 1jpmA 366 1.40e+01 c.1.11.2 67031 d.54.1.1 67032 1m2kA 249 1.41e+01 c.31.1.5 84754 1t4bA 367 1.42e+01 1m7bA 184 1.43e+01 c.37.1.8 74572 1cs0B 382 1.46e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1qwtA 255 1.48e+01 unknown_sccs -3329 1ctn 540 1.48e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1cqxA 403 1.51e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1fcjA 322 1.55e+01 1oasA c.79.1.1 35289 1f6dA 376 1.57e+01 1f6dA c.87.1.3 35467 1xypA 190 1.58e+01 1axkA b.29.1.11 24327 1senA 164 1.58e+01 1a1s 314 1.64e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1enxA 190 1.66e+01 1axkA b.29.1.11 24325 1bif 469 1.70e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1o6dA 163 1.71e+01 c.116.1.3 -6689 1v1rB 342 1.72e+01 1s2wA 295 1.77e+01 c.1.12.7 -5577 1cjbA 231 1.80e+01 1qk3A c.61.1.1 34079 2frvA 264 1.81e+01 2frvA e.19.1.1 43303 1olsB 342 1.83e+01 c.36.1.7 -6919 c.48.1.2 -7529 1a8s 273 1.84e+01 1brt c.69.1.12 34710 1d3hA 367 1.86e+01 1d3gA c.1.4.1 28601 1a9xB 379 1.87e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1pymA 295 1.92e+01 1pymA c.1.12.7 29308 1h2eA 207 1.96e+01 c.60.1.1 70857 1qlmA 316 1.99e+01 1qlmA d.147.1.1 41765 1k9sA 237 2.01e+01 c.56.2.1 68359 1vg8A 207 2.02e+01 1d3gA 367 2.04e+01 1d3gA c.1.4.1 28600 1bg6 359 2.07e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1kmqA 184 2.09e+01 c.37.1.8 84412 8ohm 435 2.11e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1bl0A 129 2.15e+01 1d5yA a.4.1.8 16053 a.4.1.8 16054 3bamB 213 2.15e+01 1bam c.52.1.3 33289 1pvvA 315 2.16e+01 c.78.1.1 -8495 c.78.1.1 -8496 1dosA 358 2.17e+01 1dosA c.1.10.2 29175 1tia 279 2.19e+01 3tgl c.69.1.17 34737 1cne 270 2.24e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 1brmA 367 2.25e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1yveI 524 2.26e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1e58A 249 2.26e+01 1qhfA c.60.1.1 59262 1f8mA 429 2.27e+01 1dquA c.1.12.7 29315 1rlaA 323 2.30e+01 1d3vA c.42.1.1 32561 1eucA 311 2.32e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1g5aA 628 2.35e+01 b.71.1.1 65152 c.1.8.1 65153 1t2aA 375 2.37e+01 c.2.1.2 -5764 1mnaA 298 2.38e+01 c.69.1.22 79322 1ccwA 137 2.40e+01 1be1 c.23.6.1 31238 1f20A 435 2.43e+01 b.43.4.1 64932 c.25.1.4 64933 1tufA 434 2.43e+01 1tn3 137 2.46e+01 1htn d.169.1.1 42423 1eluB 390 2.47e+01 1elqA c.67.1.3 34435 1jflA 228 2.50e+01 c.78.2.1 71656 c.78.2.1 71657 1kekA 1231 2.52e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1hv8A 367 2.55e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1egaA 301 2.62e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1au1A 166 2.64e+01 1ifa a.26.1.3 16889 1f2dA 341 2.64e+01 1f2dA c.79.1.1 35298 1fnmA 691 2.67e+01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1ffkL 115 2.69e+01 1ffkL c.12.1.1 30881 1pydA 556 2.70e+01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1toaA 313 2.74e+01 1toaA c.92.2.2 35598 3bifA 468 2.79e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1vjgA 218 2.80e+01 unknown_sccs -6447 1qb0A 211 2.83e+01 1c25 c.46.1.1 32699 1j3vA 289 2.87e+01 a.100.1.1 -1303 c.2.1.6 -5947 1rh5A 436 2.91e+01 unknown_sccs -12298 1eudA 311 2.93e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1ou0A 207 2.94e+01 c.23.17.1 -6498 1gvnB 287 2.95e+01 c.37.1.21 76354 1elqA 390 2.96e+01 1elqA c.67.1.3 34436 1tx4B 178 3.02e+01 1ctqA c.37.1.8 32045 1gcuA 295 3.06e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1a8p 258 3.09e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1jjyA 636 3.10e+01 1jjyA 1ufaA 520 3.10e+01 unknown_sccs -421 unknown_sccs -6065 1kutA 230 3.12e+01 d.143.1.1 73017 1mh1 186 3.14e+01 1eesA c.37.1.8 32002 1qtnA 164 3.16e+01 1pauA c.17.1.1 30999 1pvdA 537 3.18e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1k8kD 300 3.21e+01 d.198.2.1 68309 d.198.2.1 68310 1d3vA 323 3.21e+01 1d3vA c.42.1.1 32559 1cby 259 3.25e+01 1cby d.103.1.1 40705 1oaoA 674 3.31e+01 e.26.1.2 86744 1f06A 320 3.34e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 1hfeL 421 3.39e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 1pl8A 356 3.40e+01 b.35.1.2 -3716 c.2.1.1 -5740 1vj1A 363 3.40e+01 b.35.1.2 -3728 c.2.1.1 -5752 1g5qA 181 3.41e+01 1g5qA c.34.1.1 60288 1cc1S 283 3.41e+01 2frvA e.19.1.1 43313 1rypJ 204 3.44e+01 d.153.1.4 41878 6dfr 159 3.45e+01 1vdrA c.71.1.1 34874 1edqA 540 3.48e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1hzmA 154 3.51e+01 c.46.1.1 65975 1eu8A 409 3.53e+01 1eu8A c.94.1.1 59502 1dapA 320 3.57e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1jb7A 495 3.60e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1g0uI 205 3.61e+01 d.153.1.4 41891 1teaA 299 3.61e+01 1khcA 147 3.62e+01 b.34.9.2 68608 1pk9A 237 3.62e+01 c.56.2.1 -7734 1vkfA 188 3.66e+01 1skyB 502 3.70e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 3sil 379 3.71e+01 3sil b.68.1.1 27542 1eluA 390 3.72e+01 1elqA c.67.1.3 34434 1r1dA 247 3.73e+01 unknown_sccs -8335 1pbtA 244 3.73e+01 unknown_sccs -6866 1ivyA 452 3.75e+01 1ivyA c.69.1.5 34654 1draA 159 3.77e+01 1vdrA c.71.1.1 34831 1ra9 159 3.77e+01 1vdrA c.71.1.1 34820 1lc0A 294 3.79e+01 c.2.1.3 73823 d.81.1.4 73824 1o58A 303 3.84e+01 c.79.1.1 -8503 1krhA 338 3.84e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1su8A 636 3.86e+01 e.26.1.2 -12015 1j6nA 303 3.87e+01 1j5xA 342 3.89e+01 c.80.1.1 71591 1broA 277 3.92e+01 1brt c.69.1.12 34700 1nbaA 264 3.93e+01 1nbaA unknown_sccs 31753 1kezA 300 3.94e+01 c.69.1.22 68546 1oltA 457 3.95e+01 unknown_sccs -5688 1dbtA 239 3.95e+01 1dbtA c.1.2.3 28539 1t9kA 347 3.96e+01 1g3mA 294 3.98e+01 c.37.1.5 83268 1ns5A 155 3.98e+01 c.116.1.3 80705