# 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 1pfkA 320 2.36e-04 3pfk c.89.1.1 35575 2pfkA 320 2.93e-04 3pfk c.89.1.1 35577 6pfkA 319 7.34e-04 3pfk c.89.1.1 35583 3pfk 319 2.02e-03 3pfk c.89.1.1 35581 4pfk 319 2.67e-03 3pfk c.89.1.1 35582 1rcuA 195 3.80e-02 1pwhA 327 4.93e-02 2tysB 397 7.08e-02 2tysB c.79.1.1 35272 2wsyB 396 7.18e-02 2tysB c.79.1.1 35288 1bksB 397 8.31e-02 2tysB c.79.1.1 35285 1qopB 396 8.77e-02 2tysB c.79.1.1 35270 1k8yB 396 9.40e-02 c.79.1.1 72184 1qdlB 195 9.68e-02 1qdlB c.23.16.1 31437 1p5jA 372 1.70e-01 1ou0A 207 2.07e-01 1cf3A 583 2.88e-01 1gpeA c.3.1.2 30385 d.16.1.1 37949 1vgvA 384 3.27e-01 1gal 583 3.69e-01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1f6dA 376 3.89e-01 1f6dA c.87.1.3 35467 1v4vA 376 4.11e-01 1n57A 291 4.16e-01 c.23.16.7 85328 1o1yA 239 4.77e-01 c.23.16.1 86554 1bg4 302 4.99e-01 1taxA c.1.8.3 28806 1b31A 302 6.07e-01 1taxA c.1.8.3 28892 1gpeA 587 6.11e-01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1jztA 246 6.15e-01 c.104.1.1 63319 1k7hA 476 6.34e-01 c.76.1.1 72101 1jdbB 1073 6.38e-01 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 1j0aA 325 6.49e-01 c.79.1.1 83871 1kdgA 546 6.57e-01 c.3.1.2 77337 d.16.1.1 77338 1c3oB 382 7.24e-01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1gesA 450 8.74e-01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1v8aA 265 9.31e-01 1keeC 1073 1.05e+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 1.09e+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 1cs0C 1073 1.09e+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 1c3oA 1073 1.23e+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 1lvl 458 1.41e+00 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1c3oC 1073 1.42e+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 1kf6A 602 1.48e+00 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1kzhA 555 1.49e+00 c.89.1.1 73361 1c3oG 1073 1.57e+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 1c3oE 1073 1.65e+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 1keeG 1073 1.76e+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 1uirA 314 1.88e+00 1keeE 1073 2.11e+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 4gr1 478 2.17e+00 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 1trb 320 2.31e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1a9xA 1058 2.45e+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 1a9xB 379 2.54e+00 1c3oB c.8.3.1 30732 c.23.16.1 31409 3grs 478 2.56e+00 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1cs0B 382 2.70e+00 1c3oB c.8.3.1 30740 c.23.16.1 31417 1ed8A 449 2.81e+00 1b8jA c.76.1.1 34988 2anhA 446 2.84e+00 1b8jA c.76.1.1 35004 1b8jA 449 3.00e+00 1b8jA c.76.1.1 34992 1mtzA 293 3.01e+00 c.69.1.7 79467 1kh5A 449 3.20e+00 c.76.1.1 72475 1ju2A 536 3.21e+00 c.3.1.2 77169 d.16.1.1 77170 1kq3A 376 3.27e+00 e.22.1.2 68790 1elyA 449 3.46e+00 1b8jA c.76.1.1 35028 1d4oA 184 3.77e+00 1d4oA c.31.1.4 31748 1g2iA 166 3.82e+00 1g2iA c.23.16.2 31438 1kssA 571 4.03e+00 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1m64A 571 4.04e+00 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1ujnA 348 4.15e+00 1fyeA 229 4.25e+00 1fyeA c.23.16.4 31477 1r5jA 337 4.34e+00 1k2i1 245 4.42e+00 1alkA 449 4.70e+00 1b8jA c.76.1.1 34994 1fy2A 229 4.80e+00 1fyeA c.23.16.4 31478 1lj1A 571 4.86e+00 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1jqbA 351 5.02e+00 b.35.1.2 77151 c.2.1.1 77152 1e39A 571 5.07e+00 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1kp9B 287 5.39e+00 c.66.1.18 68734 1q9iA 571 5.60e+00 1mqiA 263 5.68e+00 1m0qA 433 5.96e+00 c.67.1.4 78350 1qjdA 571 6.34e+00 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1ofuA 320 6.61e+00 c.32.1.1 86972 d.79.2.1 86973 1ojaA 520 6.89e+00 1ykfA 352 6.99e+00 1pedA b.35.1.2 24757 c.2.1.1 29773 2dkb 433 7.00e+00 2dkb c.67.1.4 34438 1ukz 203 7.16e+00 1zin c.37.1.1 31840 2cgaA 245 7.21e+00 5ptp b.47.1.2 26028 1mqdA 261 7.26e+00 c.94.1.1 85049 1d7uA 433 7.32e+00 2dkb c.67.1.4 34439 1ew2A 513 7.56e+00 1b8jA c.76.1.1 59525 1gp1A 198 7.56e+00 1gp1A c.47.1.10 33059 1m5dA 263 7.67e+00 c.94.1.1 78641 1adjA 421 7.77e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1m5eA 263 8.13e+00 c.94.1.1 78642 1kkjA 419 8.28e+00 c.67.1.4 72647 1ftkA 279 8.45e+00 1gr2A c.94.1.1 35819 1c4xA 285 8.47e+00 1c4xA c.69.1.10 34684 1kobA 387 8.69e+00 1tkiA d.144.1.7 41640 1gr2A 279 8.87e+00 1gr2A c.94.1.1 35825 1mucA 373 8.94e+00 1mucA c.1.11.2 29236 d.54.1.1 38880 1gtkA 313 8.97e+00 c.94.1.1 76346 d.50.2.1 76347 1j5vA 351 9.25e+00 c.72.1.1 71585 1j6qA 136 9.53e+00 b.40.9.1 77091 1ohtA 215 9.58e+00 d.118.1.1 87036 1s3eA 520 1.03e+01 1i7qB 193 1.10e+01 1qdlB c.23.16.1 61902 1fxmA 302 1.13e+01 1taxA 1b4kA 337 1.13e+01 1b4kA c.1.10.3 29184 1k6aA 303 1.14e+01 c.1.8.3 72081 1kl1A 419 1.15e+01 c.67.1.4 72663 1uanA 227 1.19e+01 1bxrA 1073 1.25e+01 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 1tux 301 1.25e+01 1taxA c.1.8.3 28907 1h4vB 421 1.31e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1pda 315 1.35e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1i1hA 219 1.35e+01 1f2vA c.23.17.1 61530 1i1qB 192 1.39e+01 1qdlB c.23.16.1 61544 1e3tA 203 1.42e+01 1d4oA c.31.1.4 31749 1gzgA 337 1.42e+01 c.1.10.3 70805 1pedA 351 1.48e+01 1pedA b.35.1.2 24753 c.2.1.1 29769 1gokA 303 1.51e+01 c.1.8.3 65420 1p5dX 463 1.52e+01 1kpgA 287 1.52e+01 c.66.1.18 68735 1qlaB 239 1.55e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1kevA 351 1.62e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1dqsA 393 1.63e+01 1dqsA e.22.1.1 43347 1gguA 731 1.65e+01 1f13A b.1.18.9 21885 b.1.5.1 22179 b.1.5.1 22180 d.3.1.4 37115 1lxtA 561 1.68e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1mjfA 281 1.68e+01 c.66.1.17 79198 1p1jA 533 1.70e+01 c.2.1.3 87687 d.81.1.3 87688 1gheA 177 1.72e+01 d.108.1.1 76222 1upiA 225 1.75e+01 1jq3A 296 1.79e+01 c.66.1.17 67079 1o58A 303 1.80e+01 1j6nA 303 1.80e+01 c.79.1.1 71594 1jkiA 533 1.80e+01 c.2.1.3 71704 d.81.1.3 71705 1k2yX 463 1.82e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1a12A 413 1.85e+01 1a12A b.69.5.1 27663 1i1wA 303 1.85e+01 c.1.8.3 76732 1f2vA 219 1.85e+01 1f2vA c.23.17.1 59627 2gbp 309 1.86e+01 1gca c.93.1.1 35657 1ozhA 566 1.90e+01 1vhnA 318 1.91e+01 1f2dA 341 1.94e+01 1f2dA c.79.1.1 35298 1rliA 184 1.97e+01 1nrhX 472 1.99e+01 1vhqA 232 1.99e+01 1ggtB 731 1.99e+01 1f13A b.1.18.9 21882 b.1.5.1 22173 b.1.5.1 22174 d.3.1.4 37112 1fsz 372 2.06e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1colA 204 2.07e+01 1a87 f.1.1.1 43378 1i1nA 226 2.08e+01 c.66.1.7 71102 1l1eA 287 2.09e+01 c.66.1.18 73454 1qtrA 317 2.11e+01 1qtrA c.69.1.7 34660 1kfiA 572 2.11e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1oy1A 228 2.12e+01 c.23.16.6 87548 1mo9A 523 2.18e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ehiA 377 2.18e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1jljA 189 2.20e+01 c.57.1.1 63169 3pmgA 561 2.21e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1gca 309 2.22e+01 1gca c.93.1.1 35659 1eiwA 111 2.22e+01 1eiwA c.23.3.1 31130 4rnpA 883 2.23e+01 1cezA e.8.1.3 43113 1qrkA 731 2.23e+01 1f13A b.1.18.9 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 1evuA 731 2.25e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1f13A 731 2.28e+01 1f13A b.1.18.9 21877 b.1.5.1 22163 b.1.5.1 22164 d.3.1.4 37107 1ex0A 731 2.34e+01 1f6kA 293 2.35e+01 1nal3 c.1.10.1 29081 1ihcA 188 2.35e+01 1di6A c.57.1.1 62379 1pkp 150 2.36e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1nar 290 2.45e+01 1nar c.1.8.5 28988 1m2dA 110 2.48e+01 c.47.1.11 78476 1hs6A 611 2.51e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1ne6A 283 2.61e+01 1rj9A 304 2.74e+01 1f74A 293 2.82e+01 1nal3 c.1.10.1 29079 1dfoA 417 2.82e+01 1bj4A c.67.1.4 34480 2dri 271 2.84e+01 2dri c.93.1.1 35637 1gosA 520 2.86e+01 c.3.1.2 65425 d.16.1.5 65426 1zpdA 568 2.88e+01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1pmy 123 2.96e+01 1bqk b.6.1.1 22888 1ez0A 510 2.97e+01 1eyyA c.82.1.1 35385 1m2bA 110 3.01e+01 c.47.1.11 78474 1eyyA 510 3.02e+01 1eyyA c.82.1.1 35389 1m1jA 491 3.08e+01 h.1.8.1 74369 8abp 306 3.08e+01 8abp c.93.1.1 35647 1ni4A 365 3.09e+01 c.36.1.7 85728 1gv4A 528 3.15e+01 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1qrrA 394 3.21e+01 1qrrA c.2.1.2 29824 1hkhA 279 3.22e+01 1oasA 322 3.35e+01 1oasA c.79.1.1 35293 1jvbA 347 3.36e+01 b.35.1.2 77181 c.2.1.1 77182 1kr5A 226 3.40e+01 c.66.1.7 68847 1ka9H 200 3.42e+01 c.23.16.1 77308 1augA 215 3.45e+01 1a2zA c.56.4.1 33798 1gskA 513 3.45e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1d3vA 323 3.46e+01 1d3vA c.42.1.1 32559 4uagA 437 3.46e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1rlaA 323 3.52e+01 1d3vA c.42.1.1 32561 1qorA 327 3.60e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1i6wA 181 3.71e+01 1i6wA c.69.1.18 61859 1poxA 585 3.87e+01 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1g6q2 328 3.96e+01 1g6q2 1p0iA 529 3.97e+01