# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1lxjA 104 6.13e-01 d.58.48.1 84736 1pjbA 361 1.62e+00 1sayA c.2.1.4,c.23.12.2 30103,31363 1pjcA 361 2.27e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1emwA 88 2.33e+00 1emwA d.27.1.1 38448 1ejbA 168 2.38e+00 1rvv1 c.16.1.1 59417 1sayA 361 2.73e+00 1sayA c.2.1.4,c.23.12.2 30102,31362 1kzhA 555 3.55e+00 c.89.1.1 73361 1k1gA 131 3.74e+00 d.51.1.1 68015 1r88A 280 4.00e+00 c.69.1.3 97219 1ez0A 510 4.35e+00 1eyyA c.82.1.1 35385 1ig8A 486 5.48e+00 2yhx c.55.1.3,c.55.1.3 64746,64747 1klo 162 5.76e+00 1klo g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 2g0cA 76 6.12e+00 1eyyA 510 6.13e+00 1eyyA c.82.1.1 35389 1lzjA 292 7.88e+00 c.68.1.9 74352 1xt5A 135 9.53e+00 1fjgP 88 1.06e+01 1emwA d.27.1.1 38444 1gteD 1025 1.26e+01 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 1gteA 1025 1.26e+01 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 1h7xA 1025 1.34e+01 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 2fgoA 82 1.35e+01 2cuaA 135 1.37e+01 2cuaA b.6.1.2 23039 1vb5A 276 1.44e+01 1gthB 1025 1.44e+01 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 1zc6A 305 1.45e+01 1v0wA 506 1.50e+01 d.136.1.2,d.136.1.2 108220,108221 1h7wB 1025 1.52e+01 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 1oj7A 408 1.53e+01 e.22.1.2 103971 1gthA 1025 1.55e+01 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 1gt8D 1025 1.60e+01 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 1k4mA 213 1.60e+01 c.26.1.3 77258 1h7xC 1025 1.63e+01 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 1h7xB 1025 1.65e+01 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 1gt8B 1025 1.65e+01 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 1.67e+01 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 1gthD 1025 1.69e+01 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 1h7wD 1025 1.71e+01 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 1oe4A 247 1.73e+01 c.18.1.3 86895 1h7xD 1025 1.76e+01 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 1g1xC 88 1.77e+01 1fjfR a.4.8.1 16249 1gt8A 1025 1.87e+01 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 1gthC 1025 1.92e+01 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 1gt8C 1025 1.93e+01 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 2ch8A 201 1.93e+01 1wm1A 317 1.94e+01 c.69.1.7 109405 1x3zA 335 1.95e+01 1eucA 311 2.01e+01 2scuA c.2.1.8,c.23.4.1 30311,31139 1f0iA 504 2.07e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1gx4A 289 2.12e+01 c.68.1.9 83362 1i1qA 520 2.14e+01 1qdlA d.161.1.1 61543 1wohA 305 2.15e+01 c.42.1.1 109446 1k4vA 289 2.15e+01 c.68.1.9 72066 1a9xA 1058 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 18550,31479,31657,31658,41502,41503 1o7qA 289 2.40e+01 c.68.1.9 92626 1ehkB 168 2.46e+01 2cuaA b.6.1.2,f.17.2.1 23041,43625 1vdc 333 2.49e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1vkmA 297 2.53e+01 c.138.1.1 108670 1qtrA 317 2.55e+01 1qtrA c.69.1.7 34660 1o8uA 257 2.61e+01 c.14.1.3 81194 1nkgA 508 2.61e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1g8oA 310 2.64e+01 1g8oA c.68.1.9 60375 1ni9A 338 2.79e+01 e.7.1.2 85739 1eudA 311 2.82e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1v5eA 590 2.94e+01 2an1A 292 2.94e+01 1ml8A 134 2.97e+01 d.227.1.2 85013 1e9cA 215 3.24e+01 c.37.1.1 64808 1azwA 313 3.26e+01 1qtrA c.69.1.7 34658 1e2fA 215 3.46e+01 3tmkA c.37.1.1 59164 1i85A 110 3.59e+01 1i85A b.1.1.1 61946 1fnlA 175 3.60e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1vj0A 380 3.66e+01 b.35.1.2,c.2.1.1 100786,100787 4enl 436 3.89e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1xseA 295 3.94e+01 1hqcA 324 4.00e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 1cs0A 1073 4.01e+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 1qo7A 394 4.05e+01 1qo7A c.69.1.11 34697 1e9eA 215 4.19e+01 c.37.1.1 64810 1efpB 252 4.24e+01 1efvB c.26.2.3 31636 1oi7A 288 4.30e+01 c.2.1.8,c.23.4.1 87049,87050 1hyuA 521 4.31e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1uohA 226 4.43e+01 d.211.1.1 99690 1chrA 370 4.44e+01 1mucA c.1.11.2,d.54.1.1 29252,38896 2ag9A 164 4.57e+01 2biiA 424 4.58e+01 2es9A 115 4.68e+01 2tbd 134 4.78e+01 2tbd d.89.1.1 40241 1r5jA 337 4.85e+01 c.77.1.5 97097 1ww9A 392 4.94e+01 1c3oA 1073 4.95e+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 1cs0C 1073 5.01e+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 2akzA 439 5.06e+01 1tbd 134 5.11e+01 2tbd d.89.1.1 40240 2d1sA 548 5.20e+01 2ahjB 212 5.25e+01 2ahjB b.34.4.4 24599 2gefA 217 5.32e+01 1ahjB 212 5.35e+01 2ahjB b.34.4.4 24601 1szoA 257 5.44e+01 c.14.1.3 106164 1ou0A 207 5.51e+01 c.23.17.1 93536 1y0eA 223 5.57e+01 1jdbB 1073 5.60e+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 1dbs 224 5.61e+01 1byi c.37.1.10 32209 1om0A 274 5.64e+01 c.1.8.5 87058 1qmgA 524 5.70e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1yovA 537 5.74e+01 1k0iA 394 6.02e+01 c.3.1.2,d.16.1.2 67942,67943 1yveI 524 6.04e+01 1qmgA a.100.1.2,c.2.1.6 18789,30186 1fyhA 258 6.13e+01 1d9cA a.26.1.3,a.26.1.3 16907,16908 1y9aA 360 6.16e+01 1yveJ 524 6.21e+01 1qmgA a.100.1.2,c.2.1.6 18790,30187 1ob8A 135 6.24e+01 1ta3A 274 6.24e+01 c.1.8.5 106731 1aqzB 149 6.26e+01 1aqzA d.1.1.3 36239 1keeE 1073 6.28e+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 1cj3A 392 6.41e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1aquA 297 6.48e+01 1aquA c.37.1.5 31942 1byi 224 6.49e+01 1byi c.37.1.10 32199 1hv2A 99 6.53e+01 d.42.1.1 61287 1c3oE 1073 6.55e+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 1c3oG 1073 6.62e+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 1gg3A 279 6.64e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 2fdsA 352 6.66e+01 1jnrA 643 6.67e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1pbe 394 6.69e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1i24A 404 6.77e+01 c.2.1.2 83663 1bgj 394 6.78e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1te6A 439 6.81e+01 c.1.11.1,d.54.1.1 106797,106798 1q16A 1247 6.82e+01 b.52.2.2,c.81.1.1 95546,95547 1zxxA 319 6.84e+01 1keeG 1073 6.85e+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 1qrrA 394 6.86e+01 1qrrA c.2.1.2 29824 2al2A 436 6.92e+01 1oneA 436 6.98e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1aqzA 149 7.16e+01 1aqzA d.1.1.3 36238 2phh 394 7.23e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1rljA 139 7.29e+01 c.23.5.7 104983 1ykjA 394 7.37e+01 1fohA 664 7.48e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 2oneA 436 7.50e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1i86A 389 7.51e+01 c.95.1.2,c.95.1.2 66068,66069 1c3oC 1073 7.51e+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 2al1A 436 7.61e+01 2b99A 156 7.68e+01 1w6tA 444 7.71e+01 2cz1B 212 7.74e+01 1bxrA 1073 7.77e+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 1dad 224 7.84e+01 1byi c.37.1.10 32204 1y5iA 1246 7.87e+01 1kfwA 435 7.88e+01 c.1.8.5,d.26.3.1 77376,77377 1x1gA 129 7.92e+01 1pu5A 164 7.99e+01 b.95.1.1 104310 1dts 221 7.99e+01 1byi c.37.1.10 32200 1keeC 1073 8.13e+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 1ujcA 161 8.34e+01 1kgsA 225 8.34e+01 a.4.6.1,c.23.1.1 68596,68597 1upaA 573 8.36e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 2fjbA 643 8.42e+01 1r7aA 504 8.46e+01 b.71.1.1,c.1.8.1 97192,97193 1wmbA 260 8.46e+01 2fsqA 243 8.49e+01 1je8A 82 8.53e+01 a.4.6.2 77108 1z2mA 155 8.63e+01 1ny4A 82 8.78e+01 b.40.4.5 92316 1bi5A 389 8.81e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1luaA 287 8.86e+01 c.2.1.7,c.58.1.4 78216,78217 1e5pA 151 8.89e+01 1bj7 b.60.1.1 59272 1h7zA 194 8.94e+01 1qhvA b.21.1.1 60733