# 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 1nox 205 9.85e-13 1nox d.90.1.1 40242 1bkjA 240 3.22e-10 1bkjA d.90.1.1 40243 1f5vA 240 2.81e-09 1bkjA d.90.1.1 40255 1icrA 217 1.89e-07 1vfrA d.90.1.1 62274 1necA 216 3.49e-07 1vfrA d.90.1.1 40249 1vfrA 218 1.39e-06 1vfrA d.90.1.1 40247 1jeoA 180 6.83e-01 c.80.1.3 66611 1ei6A 406 1.41e+00 1vimA 200 1.83e+00 1bxrA 1073 1.90e+00 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1nf2A 268 2.14e+00 1a9xA 1058 2.23e+00 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1c3oA 1073 2.24e+00 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1keeG 1073 2.29e+00 a.92.1.1 68516 c.24.1.1 68517 c.30.1.1 68518 c.30.1.1 68519 d.142.1.2 68520 d.142.1.2 68521 1c3oG 1073 2.29e+00 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 1l5jA 865 2.41e+00 a.118.15.1 73592 c.8.2.1 73593 c.83.1.1 73594 1keeC 1073 2.45e+00 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1keeA 1073 3.01e+00 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1keeE 1073 3.04e+00 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1c3oC 1073 3.10e+00 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1c3oE 1073 3.16e+00 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1gqeA 365 3.35e+00 e.38.1.1 70351 1cs0C 1073 3.54e+00 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1jdbB 1073 3.58e+00 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1ro2A 216 4.56e+00 1khvA 516 4.92e+00 e.8.1.4 68627 1qklA 127 5.58e+00 1qklA d.78.1.2 39754 1dik 874 5.66e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1vh7A 265 5.91e+00 1qo7A 394 7.80e+00 1qo7A c.69.1.11 34697 1vaoA 560 8.04e+00 1qltA d.58.32.1 39461 d.145.1.1 41724 1kblA 873 8.36e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1f48A 589 9.48e+00 1f48A c.37.1.10 32280 c.37.1.10 32281 1thfD 253 1.10e+01 1thfD c.1.2.1 28535 1ro0A 216 1.12e+01 1ihuA 589 1.15e+01 c.37.1.10 62394 c.37.1.10 62395 1jnyA 435 1.23e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1asyA 490 1.37e+01 1b8aA b.40.4.1 25242 d.104.1.1 40763 1iso 416 1.38e+01 1iso c.77.1.1 35065 1qltA 560 1.40e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1m1nA 491 1.60e+01 c.92.2.3 78417 1d2iA 223 1.60e+01 1d2iA c.52.1.5 33297 1dfmA 223 1.61e+01 1d2iA c.52.1.5 33295 1r6uA 437 1.61e+01 2ccyA 128 1.65e+01 2ccyA a.24.3.2 16544 1r89A 437 1.67e+01 1mzgA 146 1.71e+01 d.224.1.1 79696 8pchA 220 1.72e+01 1cs8A 1e8gA 560 1.73e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1qm4A 396 1.75e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1dd5A 185 1.82e+01 1dd5A d.67.3.1 39564 1sdsA 117 1.89e+01 1b8fA 509 1.97e+01 1b8fA a.127.1.2 19434 1a53 247 1.99e+01 1a53 c.1.2.4 28564 1avc 673 2.05e+01 1avc a.65.1.1 18178 a.65.1.1 18179 2lbp 346 2.07e+01 2liv c.93.1.1 35709 1aszB 490 2.10e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1preB 470 2.11e+01 1preA d.169.1.2 42438 f.8.1.1 43825 1juk 248 2.13e+01 1a53 c.1.2.4 28567 1ftrA 296 2.20e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1n81A 186 2.30e+01 a.185.1.1 85388 4blmA 265 2.31e+01 1btl e.3.1.1 42721 1h6zA 913 2.35e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1gmyA 261 2.47e+01 d.3.1.1 76236 1kbjA 412 2.48e+01 c.1.4.1 72280 1igs 248 2.50e+01 1a53 c.1.2.4 28565 1jcrB 437 2.51e+01 a.102.4.3 66507 1d8dB 437 2.56e+01 1ft1B a.102.4.3 18866 1d2mA 665 2.58e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 2ay1A 394 2.61e+01 1ajsA c.67.1.1 34357 1j6oA 268 2.61e+01 c.1.9.12 77088 1ft1B 437 2.72e+01 1ft1B a.102.4.3 18867 1pmmA 466 2.78e+01 1oi0A 124 2.78e+01 1ld8B 437 2.78e+01 a.102.4.3 73839 1preA 470 2.80e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1szqA 483 2.93e+01 1m3sA 186 2.97e+01 c.80.1.3 78573 1usgA 346 3.08e+01 1pgvA 197 3.10e+01 c.10.1.1 88073 1q7lA 198 3.14e+01 1i1qA 520 3.20e+01 1qdlA d.161.1.1 61543 1tafB 70 3.20e+01 1tafB a.22.1.3 16482 1qcwA 410 3.33e+01 1gox c.1.4.1 28622 1gkmA 509 3.35e+01 a.127.1.2 70228 1pxwA 128 3.39e+01 1f76A 336 3.40e+01 c.1.4.1 76160 1rreA 200 3.40e+01 1iv0A 98 3.41e+01 1i49A 224 3.42e+01 1i49A h.4.7.1 61679 2sqcA 631 3.54e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1ak1 310 3.58e+01 1ak1 c.92.1.1 35594 1obbA 480 3.60e+01 c.2.1.5 86760 d.162.1.2 86761 1reqA 727 3.68e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1r6fA 310 3.72e+01 1rr9A 200 3.73e+01 1jfiB 179 3.75e+01 1jfiB a.22.1.3 62937 1qkfA 92 3.81e+01 1qkfA d.28.1.1 38456 1sftA 388 3.83e+01 1bd0A b.49.2.2 26482 c.1.6.1 28644 1deaA 266 3.84e+01 1deaA c.35.1.1 31760 1nv8A 284 3.87e+01 c.66.1.30 86224 1fts 295 3.93e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1edoA 244 3.94e+01 1ybvA c.2.1.2 29896