# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-scores 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 1vdc 333 7.70e-01 1trb c.3.1.5,c.3.1.5 30545,30546 1pjcA 361 9.18e-01 1sayA c.2.1.4,c.23.12.2 30101,31361 1sayA 361 1.66e+00 1sayA c.2.1.4,c.23.12.2 30102,31362 1pjbA 361 1.81e+00 1sayA c.2.1.4,c.23.12.2 30103,31363 1hyuA 521 1.92e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1gt8A 1025 2.29e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1eyyA 510 2.30e+00 1eyyA c.82.1.1 35389 1gt8B 1025 2.37e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 1h7wA 1025 2.44e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1gthC 1025 2.57e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1gthB 1025 2.68e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70488,70489,70490,70491,70492 1gt8D 1025 2.75e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 1ez0A 510 2.75e+00 1eyyA c.82.1.1 35385 1gteA 1025 2.80e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1h7xD 1025 2.94e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1h7wD 1025 3.00e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1gt8C 1025 3.09e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1uby 367 3.09e+00 1uby a.128.1.1 19435 1h7xC 1025 3.15e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15689,28634,30330,30615,39013 1gthA 1025 3.21e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 1h7xA 1025 3.21e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1h7wB 1025 3.23e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15684,28629,30325,30610,39008 1gthD 1025 3.26e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70498,70499,70500,70501,70502 1gteD 1025 3.28e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1h7xB 1025 3.29e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15688,28633,30329,30614,39012 1oe4A 247 3.31e+00 c.18.1.3 86895 1k1gA 131 4.90e+00 d.51.1.1 68015 1t8tA 271 5.19e+00 c.37.1.5 106685 1l1eA 287 5.64e+00 c.66.1.18 73454 1ejbA 168 5.74e+00 1rvv1 c.16.1.1 59417 1kzhA 555 5.74e+00 c.89.1.1 73361 1qrrA 394 5.84e+00 1qrrA c.2.1.2 29824 1lxjA 104 5.96e+00 d.58.48.1 84736 2an1A 292 6.09e+00 1trb 320 7.33e+00 1trb c.3.1.5,c.3.1.5 30529,30530 1fl2A 310 7.57e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1tde 316 7.93e+00 1trb c.3.1.5,c.3.1.5 30531,30532 1i24A 404 8.43e+00 c.2.1.2 83663 2cvjA 180 9.00e+00 2ez3A 302 1.02e+01 1emwA 88 1.10e+01 1emwA d.27.1.1 38448 2g0cA 76 1.12e+01 1ou0A 207 1.17e+01 c.23.17.1 93536 1qtrA 317 1.19e+01 1qtrA c.69.1.7 34660 1yy5B 513 1.19e+01 1rsgA 516 1.24e+01 2cdcA 366 1.26e+01 1npdA 288 1.33e+01 c.2.1.7,c.58.1.5 80681,80682 1wm1A 317 1.46e+01 c.69.1.7 109405 1k4mA 213 1.50e+01 c.26.1.3 77258 1u02A 239 1.51e+01 c.108.1.15 107538 1vi2A 300 1.51e+01 c.2.1.7,c.58.1.5 100726,100727 1v3vA 333 1.52e+01 b.35.1.2,c.2.1.1 108345,108346 1bi5A 389 1.53e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1gu7A 364 1.54e+01 b.35.1.2,c.2.1.1 83321,83322 1r88A 280 1.58e+01 c.69.1.3 97219 1fjgP 88 1.65e+01 1emwA d.27.1.1 38444 1i88A 389 1.71e+01 c.95.1.2,c.95.1.2 66070,66071 1u0tA 307 1.72e+01 e.52.1.1 107567 1ig8A 486 1.75e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1i86A 389 2.00e+01 c.95.1.2,c.95.1.2 66068,66069 1sxgA 280 2.04e+01 1a9xA 1058 2.07e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1klo 162 2.08e+01 1klo g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 1uk8A 282 2.11e+01 c.69.1.10 107907 1j6uA 469 2.12e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1iupA 282 2.13e+01 c.69.1.10 76815 1jdbB 1073 2.19e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18574,31503,31705,31706,41550,41551 1keeE 1073 2.27e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68508,68509,68510,68511,68512,68513 1lvl 458 2.31e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1o2dA 371 2.33e+01 e.22.1.2 86591 1keeG 1073 2.34e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68516,68517,68518,68519,68520,68521 1m2xA 223 2.39e+01 d.157.1.1 84764 1keeC 1073 2.44e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68500,68501,68502,68503,68504,68505 1xesA 413 2.48e+01 1esmA 316 2.51e+01 1esmA c.37.1.6 31953 1y89A 238 2.53e+01 1bxrA 1073 2.54e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18570,31499,31697,31698,41542,41543 1zc6A 305 2.58e+01 1qo7A 394 2.59e+01 1qo7A c.69.1.11 34697 1keeA 1073 2.67e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68492,68493,68494,68495,68496,68497 1rzrA 332 2.71e+01 1fohA 664 2.74e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1c3oC 1073 2.84e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18563,31492,31683,31684,41528,41529 1lu9A 287 2.88e+01 c.2.1.7,c.58.1.4 78210,78211 1pn0A 665 2.88e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1azwA 313 2.90e+01 1qtrA c.69.1.7 34658 1pv1A 299 3.04e+01 1fps 348 3.08e+01 1uby a.128.1.1 19436 1ni9A 338 3.08e+01 e.7.1.2 85739 1c3oA 1073 3.11e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1kp9B 287 3.13e+01 c.66.1.18 68734 1vj0A 380 3.19e+01 b.35.1.2,c.2.1.1 100786,100787 1c3oE 1073 3.21e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18564,31493,31685,31686,41530,41531 1cs0A 1073 3.21e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1luaA 287 3.24e+01 c.2.1.7,c.58.1.4 78216,78217 2biiA 424 3.24e+01 1nkgA 508 3.25e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2gefA 217 3.30e+01 1cs0C 1073 3.31e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18559,31488,31675,31676,41520,41521 1yb5A 351 3.35e+01 4pgaA 337 3.37e+01 4pgaA c.88.1.1 35565 4enl 436 3.45e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1dt6A 473 3.47e+01 1dt6A a.104.1.1 18977 1ju2A 536 3.47e+01 c.3.1.2,d.16.1.1 77169,77170 1n1pA 504 3.61e+01 c.3.1.2,d.16.1.1 91546,91547 1s4nA 348 3.63e+01 c.68.1.16 98501 1mxtA 504 3.65e+01 c.3.1.2,d.16.1.1 79671,79672 1nhs 447 3.71e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1n4wA 504 3.79e+01 c.3.1.2,d.16.1.1 91676,91677 1k2yX 463 3.82e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1b4vA 504 3.83e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1fxjA 331 3.86e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1lqtA 456 3.87e+01 c.3.1.1,c.4.1.1 74198,74199 1k4vA 289 3.89e+01 c.68.1.9 72066 2gv8A 447 3.90e+01 1t9bA 677 3.92e+01 1b8sA 504 3.98e+01 1b8sA c.3.1.2,d.16.1.1 30335,37866 1o7qA 289 4.02e+01 c.68.1.9 92626 1o89A 345 4.04e+01 b.35.1.2,c.2.1.1 92644,92645 1mo9A 523 4.05e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1rlaA 323 4.06e+01 1d3vA c.42.1.1 32561 1zmyA 142 4.13e+01 1cvrA 435 4.21e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1jq3A 296 4.24e+01 c.66.1.17 67079 1g8oA 310 4.29e+01 1g8oA c.68.1.9 60375 1rljA 139 4.30e+01 c.23.5.7 104983 1vknA 351 4.33e+01 c.2.1.3,d.81.1.1 108676,108677 1n6bA 473 4.35e+01 a.104.1.1 85359 1xt5A 135 4.38e+01 1vkjA 285 4.42e+01 c.37.1.5 108666 1w6tA 444 4.44e+01 2d1sA 548 4.45e+01 1c7iA 489 4.46e+01 1thg c.69.1.1 34632 2ffcA 353 4.47e+01 1djqA 729 4.49e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1fwyA 331 4.63e+01 1fwyA b.81.1.4,c.68.1.5 28064,34522 1ijhA 504 4.64e+01 c.3.1.2,d.16.1.1 66161,66162 1wx1A 335 4.73e+01 2fiqA 420 4.76e+01 1d3vA 323 4.76e+01 1d3vA c.42.1.1 32559 1nr6A 473 4.84e+01 a.104.1.1 92085 2aqjA 538 4.85e+01 1p5dX 463 4.86e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1hv9A 456 4.94e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1djnA 729 4.96e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1nhp 447 4.97e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1i85A 110 4.98e+01 1i85A b.1.1.1 61946 1tyyA 339 5.03e+01 1vqwA 457 5.04e+01 1c3oG 1073 5.08e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18565,31494,31687,31688,41532,41533 1w78A 422 5.10e+01 1gx4A 289 5.24e+01 c.68.1.9 83362 1bjnA 360 5.25e+01 1bjnA c.67.1.4 34469 1odfA 290 5.27e+01 c.37.1.6 92782 1akn 579 5.29e+01 2bce c.69.1.1 34626 1y5mA 276 5.33e+01 1hfeL 421 5.46e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 2cglA 489 5.49e+01 2pfkA 320 5.58e+01 3pfk c.89.1.1 35577 1c7jA 489 5.61e+01 2bce c.69.1.1 34631 1bhjA 292 5.73e+01 1xvaA c.66.1.5 34189 1d2gA 292 5.74e+01 1xvaA c.66.1.5 34187 1kbvA 327 5.77e+01 b.6.1.3,b.6.1.3 68395,68396 1el5A 389 5.91e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1x9gA 200 5.92e+01 c.33.1.3 109527 1e3jA 352 5.96e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1qh3A 260 6.00e+01 1qh5A d.157.1.2 42059 1dx4A 586 6.01e+01 2bce c.69.1.1 34622 1pfkA 320 6.07e+01 3pfk c.89.1.1 35575 2tmdA 729 6.11e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 2fdsA 352 6.27e+01 1zud1 251 6.32e+01 1qe3A 489 6.34e+01 2bce c.69.1.1 34630 1gq6A 313 6.35e+01 c.42.1.1 70341 1l9fA 389 6.36e+01 c.3.1.2,d.16.1.3 73716,73717 1kpgA 287 6.38e+01 c.66.1.18 68735 1dz4A 414 6.39e+01 1phd a.104.1.1 18903 3pghA 587 6.42e+01 1cqeA a.93.1.2,g.3.11.1 18726,44269 1nt4A 391 6.48e+01 c.60.1.2 92102 1pu5A 164 6.49e+01 b.95.1.1 104310 2aebA 322 6.55e+01 2ch8A 201 6.68e+01 1pdz 434 6.68e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1ehkB 168 6.71e+01 2cuaA b.6.1.2,f.17.2.1 23041,43625 1bjoA 360 6.73e+01 1bjnA c.67.1.4 34471 1nrwA 288 6.78e+01 c.108.1.10 86128 2bklA 695 6.79e+01 2al1A 436 6.82e+01 1cj3A 392 6.87e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1yrcA 414 6.91e+01 1rypK 198 6.93e+01 d.153.1.4 41879 1re9A 414 6.96e+01 1phg 414 6.98e+01 1phd a.104.1.1 18910 1omhA 293 7.11e+01 d.89.1.5 93348 2cuaA 135 7.11e+01 2cuaA b.6.1.2 23039 1b3mA 389 7.17e+01 1b3mA 1vi9A 299 7.18e+01 c.72.1.5 100750 1l2lA 457 7.18e+01 c.72.1.3 77656 1o86A 589 7.23e+01 d.92.1.5 81177 1aqlA 532 7.28e+01 2bce c.69.1.1 34627 1joa 447 7.33e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1td2A 287 7.34e+01 c.72.1.5 106765 1gal 583 7.35e+01 1gpeA c.3.1.2,d.16.1.1 30386,37950 2oneA 436 7.42e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1aqzB 149 7.45e+01 1aqzA d.1.1.3 36239 2f5vA 595 7.48e+01 1bu6O 501 7.48e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1ps9A 671 7.48e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1itzA 675 7.55e+01 c.36.1.10,c.36.1.6,c.48.1.1 76797,76798,76799 1pbe 394 7.62e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1p3dA 475 7.65e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 5cpp 414 7.68e+01 1phd a.104.1.1 18935 1lwdA 413 7.68e+01 c.77.1.1 78265 1uzeA 589 7.68e+01 d.92.1.5 108174 1ff9A 450 7.70e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1wohA 305 7.73e+01 c.42.1.1 109446 1ykjA 394 7.75e+01 1mtzA 293 7.75e+01 c.69.1.7 79467 1cf3A 583 7.76e+01 1gpeA c.3.1.2,d.16.1.1 30385,37949 1hzpA 335 7.82e+01 1hn9A c.95.1.2,c.95.1.2 61455,61456 1ufoA 238 7.87e+01 c.69.1.27 99344 1nnwA 252 7.92e+01 d.159.1.5 80674 2bjhA 260 7.94e+01 1bcsA 263 7.97e+01 1ivyA c.69.1.5 34647 1eudA 311 8.08e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 2a14A 263 8.10e+01 1bgj 394 8.12e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1f20A 435 8.14e+01 b.43.4.1,c.25.1.4 64932,64933 1lzjA 292 8.19e+01 c.68.1.9 74352 1tllA 688 8.19e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1whsA 255 8.27e+01 1ivyA c.69.1.5 34649 1a88A 275 8.31e+01 1brt c.69.1.12 34707 1vpwA 340 8.40e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1aqzA 149 8.44e+01 1aqzA d.1.1.3 36238 1kfwA 435 8.44e+01 c.1.8.5,d.26.3.1 77376,77377 2ag9A 164 8.50e+01 1tzzA 392 8.55e+01 1pvmA 184 8.55e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1q5dA 419 8.61e+01 a.104.1.1 95891 2cevA 299 8.65e+01 1d3vA c.42.1.1 32576 1x3zA 335 8.66e+01 1u6eA 335 8.71e+01 1u2eA 289 8.72e+01 1lwjA 441 8.78e+01 b.71.1.1,c.1.8.1 74303,74304 1hv2A 99 8.78e+01 d.42.1.1 61287 1qlaA 656 8.87e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1fdo 715 8.96e+01 2napA b.52.2.2,c.81.1.1 26917,35325