# 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 1mq4A 272 5.32e-38 d.144.1.7 91391 2bdwA 362 5.78e-38 1o6lA 337 6.11e-38 d.144.1.7 81092 1hcl 298 1.18e-37 1hcl d.144.1.7 41593 1xjdA 345 1.82e-37 1gz8A 299 2.36e-37 d.144.1.7 83405 2bfxA 284 2.43e-37 1e1xA 299 4.26e-37 1hcl d.144.1.7 59157 1jvpP 298 5.49e-37 d.144.1.7 67371 1cmkE 350 6.79e-37 1cdkA d.144.1.7 41623 1q8uA 350 7.33e-37 d.144.1.7 96230 1cdkA 350 7.56e-37 1cdkA d.144.1.7 41620 1xh9A 350 9.04e-37 1yhvA 297 1.45e-36 1phk 298 1.91e-36 1cdkA d.144.1.7 41635 1apmE 350 2.62e-36 1cdkA d.144.1.7 41628 2f57A 317 3.14e-36 1h1wA 289 3.74e-36 d.144.1.7 83460 1jksA 294 4.16e-36 d.144.1.7 71710 1uu3A 310 4.48e-36 d.144.1.7 99999 1f3mC 297 7.85e-36 1hcl d.144.1.7 41677 1rdqE 350 1.22e-35 d.144.1.7 97314 1zrzA 364 1.43e-35 2c30A 321 1.50e-35 1p4fA 293 9.33e-35 d.144.1.7 104063 1kobA 387 1.14e-34 1tkiA d.144.1.7 41640 1ia8A 289 1.94e-34 1ia8A d.144.1.7 62112 1blxA 326 2.64e-34 1hcl d.144.1.7 41596 1vzoA 355 2.89e-34 d.144.1.7 108971 2bvaA 292 4.05e-34 2eueA 279 9.23e-34 1s9jA 341 1.26e-33 3erk 364 2.45e-33 1hcl d.144.1.7 41654 1tvoA 368 2.73e-33 1o6yA 299 3.57e-33 d.144.1.7 81106 2b9hA 353 3.61e-33 1pme 380 6.67e-33 1hcl d.144.1.7 41653 1zzlA 351 7.41e-33 1wbsA 360 7.61e-33 1r3cA 366 7.92e-33 d.144.1.7 96906 1ywrA 360 1.05e-32 1pmnA 364 1.49e-32 d.144.1.7 94907 2gfsA 372 1.49e-32 1zz2A 360 3.62e-32 1tkiA 321 6.06e-32 1tkiA d.144.1.7 41638 1q41A 424 1.27e-31 d.144.1.7 95774 1t4hA 290 1.58e-31 d.144.1.7 106420 1omwA 689 1.86e-31 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1xwsA 313 2.29e-31 1opjA 293 2.73e-31 d.144.1.7 87230 2bikB 313 2.99e-31 1j1bA 420 3.05e-31 d.144.1.7 90758 2evaA 307 4.24e-31 1zy4A 303 7.50e-31 1qpcA 279 1.23e-30 1fgkA d.144.1.7 41685 3lck 271 1.25e-30 1fmk d.144.1.7 41686 2ac5A 316 1.28e-30 2ac3A 316 1.68e-30 2b7aA 293 2.19e-30 1fmk 452 6.51e-30 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 2a19B 284 8.05e-30 1a6o 332 1.59e-29 1a6o 1mp8A 281 1.68e-29 d.144.1.7 91384 1lp4A 332 2.49e-29 d.144.1.7 74170 1om1A 332 2.79e-29 d.144.1.7 93347 1lufA 343 2.84e-29 d.144.1.7 78223 1lpuA 332 2.87e-29 d.144.1.7 74177 1ymiA 334 2.90e-29 1m2rA 327 3.55e-29 d.144.1.7 84760 1t46A 313 9.00e-29 d.144.1.7 106397 1jpaA 312 9.62e-29 d.144.1.7 67011 1u46A 291 1.11e-28 d.144.1.7 107656 1ir3A 306 1.17e-28 1fmk d.144.1.7 41702 1xbbA 291 1.31e-28 1fvrA 327 1.55e-28 d.144.1.7 60047 1u59A 287 1.82e-28 d.144.1.7 107681 1fgkA 310 1.84e-28 1fgkA d.144.1.7 41693 1jwhA 337 1.94e-28 d.144.1.7 71913 1p4oA 322 4.98e-28 d.144.1.7 87775 1z57A 339 6.80e-28 1irk 306 9.95e-28 1fmk d.144.1.7 41703 1jqhA 308 9.98e-28 d.144.1.7 71793 1r0pA 312 3.02e-27 d.144.1.7 96734 1x8bA 289 5.29e-27 1ywnA 316 1.60e-26 2eu9A 355 3.47e-26 1wbpA 397 6.67e-25 1howA 373 2.21e-24 1hcl d.144.1.7 41679 1q8yA 373 2.29e-24 d.144.1.7 96234 1py5A 326 3.10e-23 d.144.1.7 104389 1vjyA 303 3.57e-23 d.144.1.7 108633 1b6cB 342 7.32e-23 1b6cB d.144.1.7 41673 1ckiA 317 9.68e-22 1csn d.144.1.7 41660 1csn 298 7.30e-20 1csn d.144.1.7 41664 1tqmA 282 1.78e-06 a.4.5.56,d.144.1.9 107236,107237 1zarA 282 5.37e-06 1zthA 258 2.42e-02 1esc 306 1.81e-01 1esc c.23.10.1 31334 1j7lA 264 4.98e-01 d.144.1.6 62697 2bkkA 264 6.39e-01 1j7iA 264 8.62e-01 1j7iA d.144.1.6 62694 2b06A 155 9.35e-01 1e17A 150 1.23e+00 2hfh a.4.5.14 16143 1e4mM 501 1.70e+00 1e70M c.1.8.4 59226 1nd4A 264 1.90e+00 d.144.1.6 91815 1e70M 501 2.27e+00 1e70M c.1.8.4 28926 1e6qM 501 2.46e+00 1e70M c.1.8.4 28920 1txqA 93 4.12e+00 1w2fA 276 4.53e+00 d.143.1.3 109125 2myr 501 5.43e+00 1y63A 184 5.51e+00 1szhA 161 5.87e+00 a.226.1.1 106157 1e8yA 966 6.22e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1ksfX 758 6.81e+00 a.174.1.1,c.37.1.20,c.37.1.20 77522,77523,77524 1e8xA 961 7.50e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19148,23183,37631,41711 1ejdA 419 7.70e+00 1uae d.68.2.2 39576 1uebA 184 7.90e+00 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1ha3A 405 8.82e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1h6zA 913 9.11e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1g8iA 190 9.56e+00 1rec a.39.1.5 60363 1a2n 419 1.02e+01 1uae d.68.2.2 39575 1w7jB 151 1.04e+01 1usgA 346 1.12e+01 c.93.1.1 99864 1iknA 286 1.23e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 1uuzA 137 1.26e+01 d.233.1.1 100024 1fltX 95 1.27e+01 1fltX b.1.1.4 21765 1rkbA 173 1.31e+01 1gwiA 411 1.32e+01 a.104.1.1 76364 1cpt 412 1.35e+01 1cpt a.104.1.1 18968 1e7uA 961 1.40e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1qtyT 101 1.42e+01 1fltX b.1.1.4 21769 1oasA 322 1.43e+01 1oasA c.79.1.1 35293 1nlnA 204 1.56e+01 d.3.1.7 91962 1fltY 95 1.75e+01 1fltX b.1.1.4 21766 1nw1A 429 1.78e+01 d.144.1.8 86286 1x92A 199 1.79e+01 1qnoA 344 1.81e+01 1qnoA c.1.8.3 28838 1avpA 204 1.83e+01 1avpA d.3.1.7 37132 1sro 76 1.84e+01 1sro b.40.4.5 25327 1z7wA 322 2.01e+01 1l2uA 245 2.10e+01 c.1.2.3 73516 1nfiC 301 2.16e+01 b.1.18.1,b.2.5.3 21943,22456 1dkvA 699 2.20e+01 1dkvA 1vcdA 126 2.21e+01 1vknA 351 2.22e+01 c.2.1.3,d.81.1.1 108676,108677 1fyhA 258 2.25e+01 1d9cA a.26.1.3,a.26.1.3 16907,16908 1nfiA 301 2.27e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 1z2mA 155 2.31e+01 1g8aA 227 2.39e+01 c.66.1.3 90506 2a65A 519 2.43e+01 1cnoA 87 2.48e+01 a.3.1.1 15814 1qnrA 344 2.48e+01 1qnoA c.1.8.3 28834 1fcjA 322 2.49e+01 1oasA c.79.1.1 35289 1tgoA 773 2.55e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 2gq1A 332 2.57e+01 1z7aA 308 2.66e+01 1ycsB 239 2.70e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1z7yA 322 2.72e+01 1yioA 208 2.88e+01 1bplB 294 2.88e+01 1bli b.71.1.1 27716 1z5rA 306 2.91e+01 1kfuL 699 3.00e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1wl9A 440 3.02e+01 1cwwA 102 3.07e+01 1cy5A a.77.1.3 18434 2bmhA 455 3.13e+01 1bu7A a.104.1.1 18941 1jb3A 131 3.22e+01 1jc7A b.40.3.2 62833 2fnaA 357 3.23e+01 2fug5 207 3.26e+01 2fb0A 94 3.31e+01 2bwvA 440 3.32e+01 2ct9A 208 3.39e+01 1ki9A 192 3.39e+01 c.37.1.1 84404 1k3sA 113 3.41e+01 d.198.1.1 68120 1mz4A 137 3.45e+01 a.3.1.1 91496 1tib 269 3.47e+01 3tgl c.69.1.17 34738 1oyc 400 3.48e+01 1oyc c.1.4.1 28603 1lywA 97 3.50e+01 1lywA b.50.1.2 26861 1vkxA 273 3.56e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 1az9 457 3.58e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 2coeA 120 3.60e+01 1uae 419 3.71e+01 1uae d.68.2.2 39574 1gxqA 106 3.80e+01 a.4.6.1 70721 1h7xD 1025 3.84e+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 1b6fA 159 3.90e+01 1bv1 d.129.3.1 41316 1z7mA 344 3.99e+01 1a16 440 4.03e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1f2hA 169 4.05e+01 1f3vA d.58.22.1 59612 2b2hA 399 4.06e+01 1hy7A 173 4.06e+01 d.92.1.11 65957 2ygsA 92 4.12e+01 1cy5A a.77.1.3 18431 1r1a1 287 4.14e+01 1aym1 1qmrA 159 4.17e+01 1bv1 d.129.3.1 41314 1jfrA 262 4.19e+01 1jfrA c.69.1.16 34724 1mil 104 4.21e+01 1d4tA d.93.1.1 40496 487dH 224 4.35e+01 1ad2 i.1.1.2 45835 1r77A 103 4.35e+01 1wkbA 810 4.37e+01 1ad2 228 4.41e+01 1ad2 e.24.1.1 43353 1gthB 1025 4.50e+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 1f3vA 179 4.52e+01 1f3vA d.58.22.1 39382 1o1zA 234 4.52e+01 c.1.18.3 86555 1fnoA 417 4.56e+01 d.58.19.1,c.56.5.4 70145,75841 1gt6A 269 4.66e+01 c.69.1.17 76342 1nnxA 109 4.69e+01 b.40.10.1 92013 2c6yA 111 4.70e+01 1uetA 437 4.71e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1h7xB 1025 4.74e+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 1jmtA 104 4.75e+01 d.58.7.3 63180 1qqiA 104 4.83e+01 1opc a.4.6.1 16233 1ki0A 253 4.83e+01 g.14.1.1,g.14.1.1,g.14.1.1 72493,72494,72495 1ve0A 134 4.89e+01 1gt8B 1025 5.02e+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 1u0sY 118 5.07e+01 c.23.1.1 107566 1bv1 159 5.07e+01 1bv1 d.129.3.1 41313 1qsvA 101 5.08e+01 1fltX b.1.1.4 21771 1h7xA 1025 5.10e+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 1mkmA 249 5.22e+01 a.4.5.33,d.110.2.2 79242,79243 1h16A 759 5.26e+01 c.7.1.1 76462 1h7xC 1025 5.27e+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 1y7lA 316 5.32e+01 1fm4A 159 5.34e+01 1bv1 d.129.3.1 76186 1wxrA 1048 5.43e+01 1nc5A 373 5.45e+01 a.102.1.6 85548 1lybA 97 5.46e+01 1smrA b.50.1.2 26857 1gteD 1025 5.47e+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 1n40A 396 5.51e+01 a.104.1.1 79977 1gt8A 1025 5.57e+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 1gvzA 237 5.59e+01 b.47.1.2 76360 1fi8A 228 5.62e+01 5ptp b.47.1.2 26374 1tmy 120 5.73e+01 1dbwA c.23.1.1 31083 1gt8D 1025 5.74e+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 1b24A 188 5.89e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1gveA 327 5.89e+01 c.1.7.1 70597 1vdxA 184 6.04e+01 1qfoA 119 6.11e+01 1qfoA b.1.1.1 19708 1aj8A 371 6.12e+01 1aj8A a.103.1.1 18900 1gteA 1025 6.17e+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 1zkoA 136 6.18e+01 1bcpB 199 6.21e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1mtpA 323 6.27e+01 e.1.1.1 85107 2be4A 272 6.34e+01 1oyb 400 6.34e+01 1oyc c.1.4.1 28602 1h7wB 1025 6.48e+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 2sqcA 631 6.57e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1vgjA 184 6.68e+01 1gthC 1025 6.70e+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 1oakA 196 6.70e+01 1auq c.62.1.1 34138 3pflA 759 6.77e+01 1cm5A c.7.1.1 30673 1gp6A 356 6.94e+01 b.82.2.1 65441 1gp4A 356 7.00e+01 b.82.2.1 65439 1dcqA 278 7.05e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 1a81A 254 7.06e+01 1a81A d.93.1.1,d.93.1.1 40507,40508 2pflA 759 7.14e+01 1cm5A c.7.1.1 30675 1h7wA 1025 7.25e+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 1gt8C 1025 7.32e+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 1xk5A 204 7.45e+01 1lr0A 129 7.46e+01 d.212.1.1 74213 1aipA 405 7.46e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1fnsA 196 7.54e+01 1auq c.62.1.1 34136 1h7wD 1025 7.55e+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 1aipE 405 7.57e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1r5pA 108 7.67e+01 c.47.1.15 97101 1gthD 1025 7.69e+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 1sig 339 7.70e+01 1sig a.177.1.1 19068 1jc7A 131 7.79e+01 1jc7A b.40.3.2 62873 1txjA 171 7.83e+01 b.88.1.2 107424 1l5zA 155 7.89e+01 c.23.1.1 77722 1f07A 321 7.94e+01 1ezwA c.1.16.3 59560 1t0fA 276 7.96e+01 1mqeA 207 8.00e+01 d.113.1.1 91394 1t2bA 397 8.05e+01 1twdA 256 8.09e+01 c.1.30.1 107397 1ok8A 394 8.21e+01 b.1.18.4,f.10.1.1 93236,93237 1ug6A 431 8.29e+01 c.1.8.4 88490 1cjaA 342 8.38e+01 1cjaA d.144.1.3 41708 1f1zA 273 8.40e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1oz9A 150 8.69e+01 d.92.1.15 93808 1vdmA 153 8.72e+01 2lbp 346 8.73e+01 2liv c.93.1.1 35709 1gthA 1025 8.84e+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 1qfoC 119 8.90e+01 1qfoA b.1.1.1 19710 1lmeA 176 8.95e+01 d.167.1.1 84629 1qmqA 414 8.98e+01 1phd a.104.1.1 18907