# 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 1nox 205 3.58e-12 1nox d.90.1.1 40242 1bkjA 240 3.41e-09 1bkjA d.90.1.1 40243 1f5vA 240 3.87e-08 1bkjA d.90.1.1 40255 1icrA 217 4.16e-07 1vfrA d.90.1.1 62274 1necA 216 9.60e-07 1vfrA d.90.1.1 40249 1vfrA 218 1.78e-06 1vfrA d.90.1.1 40247 1jeoA 180 5.97e-02 c.80.1.3 66611 1vimA 200 7.64e-01 1qklA 127 9.14e-01 1qklA d.78.1.2 39754 2ccyA 128 1.85e+00 2ccyA a.24.3.2 16544 1n81A 186 1.89e+00 a.185.1.1 85388 1igs 248 2.95e+00 1a53 c.1.2.4 28565 1juk 248 3.09e+00 1a53 c.1.2.4 28567 1dik 874 3.15e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1l5jA 865 3.54e+00 a.118.15.1 73592 c.8.2.1 73593 c.83.1.1 73594 1cs0C 1073 3.61e+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 1uswA 260 3.90e+00 1uwcA 261 4.32e+00 1kblA 873 4.54e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1m3sA 186 4.60e+00 c.80.1.3 78573 1keeA 1073 4.81e+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 1khvA 516 4.86e+00 e.8.1.4 68627 1ec7A 446 4.96e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1nf2A 268 5.38e+00 1bxrA 1073 5.75e+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 1ihuA 589 5.88e+00 c.37.1.10 62394 c.37.1.10 62395 1a9xA 1058 5.90e+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 1a53 247 5.90e+00 1a53 c.1.2.4 28564 1keeC 1073 6.07e+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 1j6rA 214 6.24e+00 d.173.1.2 71598 1f48A 589 6.24e+00 1f48A c.37.1.10 32280 c.37.1.10 32281 1c3oA 1073 6.32e+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 1ei6A 406 6.53e+00 1r6uA 437 6.55e+00 1jcrB 437 6.64e+00 a.102.4.3 66507 1d8dB 437 6.84e+00 1ft1B a.102.4.3 18866 1ft1B 437 6.98e+00 1ft1B a.102.4.3 18867 1hy0A 466 7.03e+00 1auwA a.127.1.1 61392 1jdbB 1073 7.07e+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 1ld8B 437 7.17e+00 a.102.4.3 73839 1jfiB 179 7.25e+00 1jfiB a.22.1.3 62937 1keeE 1073 7.38e+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 7.50e+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 1keeG 1073 7.64e+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 1c3oE 1073 7.65e+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 1m1nA 491 8.47e+00 c.92.2.3 78417 1h6gA 256 8.68e+00 1h6gA a.24.9.1 60669 a.24.9.1 60670 1deaA 266 8.72e+00 1deaA c.35.1.1 31760 1qltA 560 8.74e+00 1qltA d.58.32.1 39457 d.145.1.1 41720 1c3oG 1073 9.02e+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 1vaoA 560 9.18e+00 1qltA d.58.32.1 39461 d.145.1.1 41724 1jdfA 447 1.01e+01 c.1.11.2 62897 d.54.1.1 62898 1fs5A 266 1.14e+01 c.35.1.1 65044 1e8gA 560 1.15e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1ftrA 296 1.26e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1v1rA 400 1.27e+01 1m2oA 768 1.31e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1eb7A 323 1.33e+01 1eb7A a.3.1.5 59404 a.3.1.5 59405 1i4dA 224 1.35e+01 h.4.7.1 61682 1envA 123 1.41e+01 1envA h.3.2.1 45726 1r6fA 310 1.44e+01 1hr6A 475 1.45e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 1iso 416 1.53e+01 1iso c.77.1.1 35065 1o5zA 442 1.53e+01 1i4lA 224 1.54e+01 1i49A h.4.7.1 61718 1jnyA 435 1.62e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1i49A 224 1.62e+01 1i49A h.4.7.1 61679 1oi0A 124 1.77e+01 4blmA 265 1.88e+01 1btl e.3.1.1 42721 1i4tB 224 1.90e+01 h.4.7.1 61730 1fsfA 266 1.95e+01 c.35.1.1 65047 1b8fA 509 2.02e+01 1b8fA a.127.1.2 19434 1gkmA 509 2.03e+01 a.127.1.2 70228 1q7sA 117 2.11e+01 1thfD 253 2.12e+01 1thfD c.1.2.1 28535 1ig8A 486 2.23e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1rfmA 344 2.25e+01 1r31A 428 2.32e+01 1i1qA 520 2.38e+01 1qdlA d.161.1.1 61543 1i3dA 146 2.48e+01 a.1.1.2 61587 1qaxA 428 2.49e+01 1qaxA d.58.20.1 39376 d.179.1.1 42597 2minA 491 2.52e+01 1qguA c.92.2.3 35609 1edoA 244 2.55e+01 1ybvA c.2.1.2 29896 1c4oA 664 2.57e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 3minC 491 2.72e+01 1qguA c.92.2.3 35607 1i12A 160 2.78e+01 1i21A d.108.1.1 61515 1qayA 428 2.78e+01 1qaxA d.58.20.1 39378 d.179.1.1 42599 1pkn 530 2.83e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1auwA 468 2.90e+01 1auwA a.127.1.1 19416 1es2A 262 2.97e+01 1skf e.3.1.1 42680 1ks8A 433 2.99e+01 a.102.1.2 77519 1tafB 70 3.01e+01 1tafB a.22.1.3 16482 1d2mA 665 3.06e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1gajA 257 3.07e+01 1gajA c.37.1.12 60416 1ab4 477 3.11e+01 1ab4 e.11.1.1 43251 1pv9A 348 3.12e+01 1c9kB 180 3.13e+01 1c9kB c.37.1.11 32364 1nvvS 481 3.16e+01 a.117.1.1 86279 1jkmA 358 3.19e+01 1jkmA c.69.1.2 34633 1n45A 233 3.31e+01 a.132.1.1 79981 1geeA 261 3.37e+01 1olsA 400 3.39e+01 1i1dA 161 3.48e+01 1i21A d.108.1.1 61526 1mzgA 146 3.48e+01 d.224.1.1 79696 1gqeA 365 3.50e+01 e.38.1.1 70351 1mldA 314 3.55e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1g6hA 257 3.64e+01 1gajA c.37.1.12 60318 1qazA 351 3.65e+01 1qazA a.102.3.1 18848 1i50F 155 3.66e+01 d.78.1.2 61760 1ui0A 205 3.76e+01 1n1jA 93 3.78e+01 a.22.1.3 79813 1g0oA 283 3.80e+01 1ybvA c.2.1.2 60181 1oshA 232 3.86e+01 1gcoA 261 3.86e+01 1ybvA c.2.1.2 29884 1obbA 480 3.88e+01 c.2.1.5 86760 d.162.1.2 86761 1rfzA 168 3.91e+01 1es5A 262 3.96e+01 1skf e.3.1.1 42679 1ezvD 245 3.98e+01 1be3D a.3.1.3 59546 f.23.11.1 59547