# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 2pfkA 320 5.29e-02 3pfk c.89.1.1 35577 1pfkA 320 5.42e-02 3pfk c.89.1.1 35575 6pfkA 319 1.23e-01 3pfk c.89.1.1 35583 3pfk 319 2.83e-01 3pfk c.89.1.1 35581 1j0aA 325 2.97e-01 c.79.1.1 83871 4pfk 319 3.03e-01 3pfk c.89.1.1 35582 1trb 320 7.54e-01 1trb c.3.1.5 30529 c.3.1.5 30530 1v4vA 376 8.94e-01 1k8yB 396 9.76e-01 c.79.1.1 72184 1bksB 397 1.06e+00 2tysB c.79.1.1 35285 2wsyB 396 1.09e+00 2tysB c.79.1.1 35288 1qopB 396 1.14e+00 2tysB c.79.1.1 35270 2tysB 397 1.16e+00 2tysB c.79.1.1 35272 1pwhA 327 1.66e+00 1f6dA 376 2.06e+00 1f6dA c.87.1.3 35467 1p5jA 372 2.15e+00 1vgvA 384 2.46e+00 1ou0A 207 2.76e+00 1rcuA 195 2.81e+00 1uirA 314 4.75e+00 1vddA 228 5.07e+00 1h7wB 1025 6.55e+00 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1gthB 1025 7.20e+00 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1gteD 1025 7.52e+00 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1gt8B 1025 7.75e+00 a.1.2.2 70423 c.1.4.1 70424 c.3.1.1 70425 c.4.1.1 70426 d.58.1.5 70427 1gt8A 1025 7.86e+00 a.1.2.2 70418 c.1.4.1 70419 c.3.1.1 70420 c.4.1.1 70421 d.58.1.5 70422 1h7xD 1025 7.90e+00 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1gt8C 1025 8.37e+00 a.1.2.2 70428 c.1.4.1 70429 c.3.1.1 70430 c.4.1.1 70431 d.58.1.5 70432 1h7wD 1025 8.52e+00 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1sr9A 644 8.57e+00 1gthA 1025 8.72e+00 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1h7xB 1025 9.07e+00 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1pswA 348 9.23e+00 c.87.1.7 88287 1h7xC 1025 9.46e+00 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1h7wA 1025 9.51e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1gteA 1025 9.54e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1h7xA 1025 9.88e+00 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1ckmA 330 1.04e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1gthC 1025 1.05e+01 a.1.2.2 70493 c.1.4.1 70494 c.3.1.1 70495 c.4.1.1 70496 d.58.1.5 70497 1g0cA 364 1.07e+01 7a3hA c.1.8.3 60165 1gt8D 1025 1.09e+01 a.1.2.2 70433 c.1.4.1 70434 c.3.1.1 70435 c.4.1.1 70436 d.58.1.5 70437 1g01A 364 1.15e+01 7a3hA c.1.8.3 60161 1ehkB 168 1.20e+01 2cuaA b.6.1.2 23041 f.17.2.1 43625 1n82A 331 1.21e+01 1gthD 1025 1.24e+01 a.1.2.2 70498 c.1.4.1 70499 c.3.1.1 70500 c.4.1.1 70501 d.58.1.5 70502 1kzhA 555 1.27e+01 c.89.1.1 73361 1cknA 330 1.30e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1eiwA 111 1.43e+01 1eiwA c.23.3.1 31130 1vi1A 345 1.52e+01 1c3oB 382 1.54e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1lt8A 406 1.61e+01 c.1.26.1 78186 1l0qA 391 1.67e+01 b.1.3.1 77644 b.69.2.3 77645 1m2aA 110 1.70e+01 c.47.1.11 78472 1ju2A 536 1.71e+01 c.3.1.2 77169 d.16.1.1 77170 1gv4A 528 1.72e+01 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1nvpD 108 1.74e+01 1inlA 296 1.75e+01 c.66.1.17 66220 1m2bA 110 1.84e+01 c.47.1.11 78474 1kq3A 376 1.87e+01 e.22.1.2 68790 1m2dA 110 1.88e+01 c.47.1.11 78476 1jq3A 296 1.89e+01 c.66.1.17 67079 1ii7A 333 1.89e+01 1ii7A d.159.1.4 62415 1chuA 540 2.01e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1ur1A 378 2.02e+01 1kr5A 226 2.06e+01 c.66.1.7 68847 1j9jA 247 2.24e+01 c.106.1.1 62758 1fl2A 310 2.30e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1d1gA 168 2.32e+01 1d1gA c.71.1.1 34889 1es9A 232 2.39e+01 1wab c.23.10.3 31340 1eokA 290 2.42e+01 1eokA c.1.8.5 28991 1nnsA 326 2.42e+01 c.88.1.1 85910 1cz3A 168 2.43e+01 1d1gA c.71.1.1 34891 1wab 232 2.47e+01 1wab c.23.10.3 31341 4gr1 478 2.52e+01 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 3grs 478 2.54e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1j9lA 247 2.56e+01 c.106.1.1 62762 1i1nA 226 2.58e+01 c.66.1.7 71102 1o9wA 177 2.58e+01 b.2.3.5 86713 1rj8A 164 2.58e+01 2cuaA 135 2.59e+01 2cuaA b.6.1.2 23039 4pgaA 337 2.61e+01 4pgaA c.88.1.1 35565 1cs0B 382 2.67e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1jhdA 396 2.69e+01 b.122.1.3 66712 c.26.1.5 66713 1f37A 110 2.72e+01 1f37A c.47.1.11 33088 1m3iA 471 2.72e+01 1ig3A 263 2.76e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1a9xB 379 2.80e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1uoyA 64 2.86e+01 1r0tB 62 2.98e+01 1nzhA 282 2.99e+01 1upiA 225 3.01e+01 1dfoA 417 3.15e+01 1bj4A c.67.1.4 34480 1oxdA 227 3.15e+01 1lizA 136 3.26e+01 b.40.9.1 78018 1gy7A 125 3.27e+01 d.17.4.2 70738 1osyA 115 3.37e+01 1pmi 440 3.45e+01 1pmi b.82.1.3 28114 1kdgA 546 3.47e+01 c.3.1.2 77337 d.16.1.1 77338 1ga6A 372 3.50e+01 1ga1A c.41.1.2 32556 1ga1A 372 3.67e+01 1ga1A c.41.1.2 32557 1mjfA 281 3.76e+01 c.66.1.17 79198 1b3jA 274 3.90e+01 1agdA b.1.1.2 20855 d.19.1.1 38319 2emo 237 3.94e+01 1ema d.22.1.1 38366