# List of top-scoring protein chains for t06-100-40-40-str2+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 1sjdA 368 2.89e-02 c.1.11.2,d.54.1.1 105632,105633 1yeyA 444 1.39e-01 1a12A 413 3.06e-01 1a12A b.69.5.1 27663 1mucA 373 3.13e-01 1mucA c.1.11.2,d.54.1.1 29236,38880 1jtdB 273 4.96e-01 b.69.5.2 67265 1r0mA 375 5.71e-01 c.1.11.2,d.54.1.1 104747,104748 2gshA 414 7.65e-01 1wm1A 317 8.36e-01 c.69.1.7 109405 2aa4A 289 9.09e-01 1ec7A 446 1.03e+00 1bqg c.1.11.2,d.54.1.1 29218,38862 1m1nB 522 1.08e+00 c.92.2.3 78418 1r6wA 322 1.70e+00 c.1.11.2,d.54.1.1 97165,97166 1rvkA 382 2.06e+00 c.1.11.2,d.54.1.1 97928,97929 1eyqA 222 2.24e+00 1eypA d.36.1.1 38534 2fr1A 486 2.37e+00 1twiA 434 2.47e+00 b.49.2.3,c.1.6.1 107399,107400 1tkkA 366 2.54e+00 c.1.11.2,d.54.1.1 107089,107090 1t3tA 1303 2.86e+00 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1ve2A 235 2.93e+00 1apyB 141 2.96e+00 1apyB 1w2fA 276 3.10e+00 d.143.1.3 109125 1o17A 345 3.41e+00 a.46.2.1,c.27.1.1 80765,80766 2gdqA 382 3.56e+00 1jetA 517 3.91e+00 1jevA c.94.1.1 35718 2f4nA 273 3.97e+00 1to6A 371 3.98e+00 c.141.1.1 107170 1xqoA 256 4.05e+00 1mdl 359 4.07e+00 2mnr c.1.11.2,d.54.1.1 29247,38891 1qo7A 394 4.15e+00 1qo7A c.69.1.11 34697 1ehiA 377 4.26e+00 1iow c.30.1.2,d.142.1.1 31716,41484 1lfkA 398 4.27e+00 a.104.1.1 77926 1yzyA 413 4.59e+00 1wwkA 307 4.65e+00 1tt7A 330 4.82e+00 1tzzA 392 4.83e+00 1nu5A 370 6.01e+00 c.1.11.2,d.54.1.1 92183,92184 2az4A 429 7.05e+00 1es9A 232 7.08e+00 1wab c.23.10.3 31340 1l7aA 318 7.19e+00 c.69.1.25 77772 1ng0A 253 7.33e+00 b.121.4.7 80475 1y7lA 316 7.71e+00 2abwA 227 7.73e+00 2gcuA 245 7.84e+00 1a7tA 232 8.35e+00 1a7tA d.157.1.1 42041 1nm8A 616 8.91e+00 c.43.1.3,c.43.1.3 85872,85873 1mv8A 436 8.99e+00 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1ve1A 304 8.99e+00 1eceA 358 9.11e+00 1eceA c.1.8.3 28813 1lfwA 470 9.25e+00 c.56.5.4,d.58.19.1 77942,77943 1b65A 375 9.29e+00 1b65A d.154.1.1 42020 1jfuA 186 9.65e+00 c.47.1.10 62940 1uk8A 282 9.77e+00 c.69.1.10 107907 1f1uA 323 1.01e+01 d.32.1.3,d.32.1.3 83200,83201 1udh 244 1.01e+01 3eugA c.18.1.1 31015 1cyx 205 1.03e+01 1cyx b.6.1.2 23023 2fuvA 549 1.03e+01 2booA 247 1.08e+01 1xm9A 457 1.10e+01 2a5hA 416 1.10e+01 1uv0A 149 1.14e+01 d.169.1.1 100028 1ryiA 382 1.18e+01 1mgtA 174 1.20e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1th0A 226 1.27e+01 d.3.1.7 106903 1x3mA 415 1.32e+01 2gl5A 410 1.36e+01 1vkwA 218 1.38e+01 d.90.1.2 108695 1ehyA 294 1.41e+01 1ehyA c.69.1.11 34693 1g5bA 221 1.41e+01 1g5bA d.159.1.3 60261 1s5dA 240 1.42e+01 d.166.1.1 98541 1pea 385 1.48e+01 1pea c.93.1.1 35662 1rx0A 393 1.51e+01 a.29.3.1,e.6.1.1 98007,98008 1m1hA 248 1.53e+01 b.114.1.1,d.58.42.1 78415,78416 1uteA 313 1.57e+01 1uteA d.159.1.1 42078 1ef8A 261 1.63e+01 1ef8A c.14.1.3 30921 1t1uA 639 1.63e+01 2g7zA 282 1.66e+01 1h65A 270 1.69e+01 c.37.1.8 65640 1cex 214 1.70e+01 1cex c.69.1.30 31285 1odfA 290 1.76e+01 c.37.1.6 92782 1zkiA 133 1.81e+01 1akz 223 1.82e+01 3eugA c.18.1.1 31007 1t06A 235 1.89e+01 a.118.1.17 106194 1vflA 356 1.89e+01 1fehA 574 1.89e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1qh8A 478 1.92e+01 1qguA c.92.2.3 35633 1nnwA 252 1.95e+01 d.159.1.5 80674 1p2xA 159 2.02e+01 a.40.1.1 104062 2bfwA 200 2.03e+01 1xhkA 187 2.08e+01 2trxA 108 2.12e+01 1thx c.47.1.1 32719 1pmmA 466 2.18e+01 c.67.1.6 94901 1us5A 314 2.19e+01 c.94.1.1 99856 1qopB 396 2.21e+01 2tysB c.79.1.1 35270 1o58A 303 2.23e+01 c.79.1.1 92491 2bpqA 373 2.27e+01 1xocA 520 2.28e+01 2bbhA 269 2.31e+01 1bed 181 2.34e+01 1fvkA c.47.1.13 90330 1i1qB 192 2.34e+01 1qdlB c.23.16.1 61544 1ng2A 193 2.38e+01 b.34.2.1,b.34.2.1 85660,85661 2cwcA 303 2.40e+01 1esc 306 2.45e+01 1esc c.23.10.1 31334 1j4aA 333 2.51e+01 c.2.1.4,c.23.12.1 71502,71503 1cnzA 363 2.52e+01 1cnzA c.77.1.1 35061 1uwkA 557 2.56e+01 e.51.1.1 108065 1wteA 272 2.57e+01 1uok 558 2.61e+01 1uok b.71.1.1,c.1.8.1 27801,28788 2d0iA 333 2.62e+01 1gnlA 544 2.63e+01 e.26.1.1 70287 1jidA 128 2.65e+01 d.201.1.1 66735 2azpA 318 2.65e+01 1edg 380 2.68e+01 1edg c.1.8.3 28807 1u9yA 284 2.70e+01 1nb9A 147 2.72e+01 b.43.5.1 85515 2fz0A 149 2.79e+01 1w2lA 99 2.80e+01 1ii5A 233 2.80e+01 c.94.1.1 62412 1ab8A 220 2.90e+01 1azsA d.58.29.1 39414 1qmeA 702 2.90e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2g8lA 299 2.90e+01 1qqp2 218 2.91e+01 1qqp2 1qmvA 197 2.92e+01 1qq2A c.47.1.10 33066 2b1xA 470 2.99e+01 1czaN 917 2.99e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1ej2A 181 3.00e+01 1f9aA c.26.1.3 59414 1fvkA 189 3.01e+01 1fvkA c.47.1.13 90351 1womA 271 3.04e+01 2pth 193 3.09e+01 2pth c.56.3.1 33793 1kb9A 431 3.16e+01 d.185.1.1,d.185.1.1 77311,77312 1t13A 158 3.18e+01 1dxy 333 3.21e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1wkrA 340 3.21e+01 b.50.1.2 109395 1ae9A 179 3.25e+01 1ae9A d.163.1.1 42153 1m8jA 181 3.31e+01 c.26.1.3 84875 1qw9A 502 3.40e+01 b.71.1.2,c.1.8.3 96466,96467 1wzcA 249 3.40e+01 1iqqA 200 3.49e+01 d.124.1.1 66274 2apjA 260 3.52e+01 2a8jA 420 3.52e+01 1ko6A 187 3.53e+01 b.119.1.1 77471 1pwxA 254 3.55e+01 c.2.1.2 95262 2ew8A 249 3.55e+01 1jjtA 228 3.56e+01 1a7tA d.157.1.1 63139 1zmtA 254 3.63e+01 1nswA 105 3.68e+01 c.47.1.1 92097 1xzzA 246 3.70e+01 1e3dA 266 3.71e+01 2frvA e.19.1.1 59188 1vkhA 273 3.71e+01 c.69.1.32 108662 1zuwA 272 3.74e+01 1iow 306 3.81e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1ptmA 329 3.82e+01 c.77.1.3 95104 1v98A 140 3.87e+01 2fsrA 195 3.88e+01 1qx4A 274 3.93e+01 b.43.4.2,c.25.1.1 104624,104625 1u3wA 374 3.97e+01 1ktbA 405 4.05e+01 b.71.1.1,c.1.8.1 72960,72961 1a76 326 4.07e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1fm0E 150 4.09e+01 1fmaE d.41.5.1 38629 1wraA 308 4.16e+01 1jztA 246 4.19e+01 c.104.1.1 63319 1m4jA 142 4.22e+01 d.109.1.2 78602 1vjoA 393 4.23e+01 c.67.1.3 100827 2g84A 197 4.26e+01 1xnzA 264 4.31e+01 1xccA 220 4.34e+01 2g76A 335 4.34e+01 1yydA 357 4.37e+01 1d1gA 168 4.38e+01 1d1gA c.71.1.1 34889 1ko3A 230 4.39e+01 d.157.1.1 90974 1hr6A 475 4.39e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1r6xA 395 4.42e+01 b.122.1.3,c.26.1.5 97167,97168 1knyA 253 4.42e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1wstA 417 4.46e+01 1jykA 254 4.50e+01 c.68.1.13 67458 1lh0A 213 4.52e+01 c.61.1.1 73896 1unnC 115 4.59e+01 d.240.1.1 99680 1u8vA 490 4.67e+01 1qamA 244 4.69e+01 2ercA c.66.1.24 34220 1vgjA 184 4.70e+01 1dpe 507 4.73e+01 1dpe c.94.1.1 35799 1urrA 102 4.82e+01 d.58.10.1 107998 1fiqC 763 4.84e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1ro5A 201 4.84e+01 d.108.1.3 105023 2arhA 203 4.94e+01 1k82A 268 4.94e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1jovA 270 5.05e+01 b.30.5.7 84192 1rlmA 271 5.06e+01 1bhdA 118 5.06e+01 1bkrA a.40.1.1 17398 1njrA 284 5.07e+01 c.50.1.2 103858 1ufoA 238 5.09e+01 c.69.1.27 99344 1ufbA 127 5.09e+01 a.24.16.3 99331 1mr7A 209 5.10e+01 b.81.1.3 91430 1px5A 349 5.11e+01 a.160.1.2,d.218.1.6 95277,95278 2a7mA 250 5.17e+01 1nbwA 607 5.23e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1dljA 402 5.24e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2b7nA 273 5.26e+01 2b61A 377 5.30e+01 1vbiA 344 5.31e+01 1eh8A 207 5.33e+01 1sfe a.4.2.1,c.55.7.1 16077,33752 1rloA 271 5.34e+01 1dkuA 317 5.40e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1p5dX 463 5.48e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1g66A 207 5.49e+01 1bs9 c.69.1.30 31329 1mtzA 293 5.53e+01 c.69.1.7 79467 1prxA 224 5.55e+01 1prxA c.47.1.10 33076 1fobA 334 5.57e+01 c.1.8.3 83255 1t0bA 252 5.59e+01 c.23.16.6 106199 2bg5A 324 5.59e+01 1whbA 157 5.67e+01 1xl7A 612 5.71e+01 4eugA 229 5.72e+01 3eugA c.18.1.1 31019 1n8jA 186 5.73e+01 c.47.1.10 85401 1mml 265 5.73e+01 1mml e.8.1.2 43015 1y4wA 518 5.76e+01 1w4xA 542 5.78e+01 c.3.1.5,c.3.1.5 109171,109172 1vhwA 253 5.80e+01 c.56.2.1 100706 2a2fX 325 5.84e+01 1aoeA 192 5.86e+01 1aoeA c.71.1.1 34923 2cxaA 256 5.88e+01 1gveA 327 5.90e+01 c.1.7.1 70597 1m1nA 491 5.97e+01 c.92.2.3 78417 3thiA 371 6.05e+01 2thiA c.94.1.1 35792 1xqwA 293 6.07e+01 1uedA 406 6.08e+01 a.104.1.1 99256 1zdzA 302 6.13e+01 1v97A 1332 6.14e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 2d1eA 248 6.14e+01 1v4sA 455 6.15e+01 c.55.1.3,c.55.1.3 100309,100310 1nmeA 146 6.16e+01 c.17.1.1 85874 2ddrA 306 6.20e+01 2bjfA 329 6.33e+01 1ej6D 418 6.34e+01 i.7.1.1 45970 1t5oA 351 6.34e+01 c.124.1.5 106459 1ek0A 170 6.34e+01 1ctqA c.37.1.8 32076 1othA 321 6.40e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1n8kA 374 6.46e+01 b.35.1.2,c.2.1.1 80298,80299 1vm9A 111 6.48e+01 b.33.1.1 108886 1a99A 344 6.49e+01 1pot c.94.1.1 35812 1jc9A 269 6.57e+01 d.171.1.1 66490 1w7lA 422 6.60e+01 c.67.1.1 109226 1bkrA 109 6.62e+01 1bkrA a.40.1.1 17394 1ujcA 161 6.64e+01 1r6dA 337 6.69e+01 c.2.1.2 97148 1qntA 176 6.75e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 1guqA 348 6.80e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 2anuA 255 6.83e+01 1bg1A 722 6.85e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1ne9A 335 6.87e+01 d.108.1.4,d.108.1.4 91839,91840 1va4A 279 6.90e+01 c.69.1.12 108458 1zejA 293 6.92e+01 1qkmA 255 6.92e+01 3erdA a.123.1.1 19309 1wvqA 167 6.93e+01 2fymA 431 6.94e+01 1j98A 157 6.99e+01 1j98A d.185.1.2 62755 2bzlA 325 7.02e+01 1h4pA 408 7.05e+01 c.1.8.3 90617 2d1pA 140 7.07e+01 2ceyA 306 7.15e+01 2cqsA 842 7.15e+01 1zvtA 256 7.28e+01 1jznA 135 7.29e+01 d.169.1.1 84262 1vixA 420 7.30e+01 c.56.5.4,d.58.19.1 100777,100778 1augA 215 7.31e+01 1a2zA c.56.4.1 33798 1ep3B 262 7.31e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1whsA 255 7.39e+01 1ivyA c.69.1.5 34649 1uj8A 77 7.40e+01 1yg6A 193 7.40e+01 1txkA 498 7.41e+01 b.1.18.2,b.30.5.9 107425,107426 1j5xA 342 7.41e+01 c.80.1.1 71591 1ni4B 341 7.42e+01 c.36.1.7,c.48.1.2 85729,85730 1ua4A 455 7.46e+01 c.72.1.3 99128 1m70A 190 7.49e+01 a.3.1.4,a.3.1.4 91200,91201 1cfr 285 7.51e+01 1cfr c.52.1.7 33312 1e4fT 419 7.53e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1wa5B 530 7.64e+01 1yspA 181 7.74e+01 2f2sA 406 7.78e+01 1vquA 374 7.78e+01 1xeeA 91 7.78e+01 2fywA 267 7.82e+01 1s3zA 165 7.88e+01 d.108.1.1 105250 1r7aA 504 7.89e+01 b.71.1.1,c.1.8.1 97192,97193 1fkqA 124 7.94e+01 3lzt d.2.1.2 36601 1za7A 165 7.99e+01 1nnsA 326 8.05e+01 c.88.1.1 85910 2ag5A 246 8.08e+01 2cbzA 237 8.08e+01 1b9oA 123 8.10e+01 3lzt d.2.1.2 36597 1yb2A 275 8.11e+01 1dkqA 410 8.11e+01 1dklA c.60.1.2 33998 1o6dA 163 8.15e+01 c.116.1.3 92567 1e12A 253 8.16e+01 1c3wA f.13.1.1 43428 2b4vA 468 8.18e+01 1f1xA 322 8.22e+01 d.32.1.3,d.32.1.3 83208,83209 1frb 315 8.22e+01 1frb c.1.7.1 28665 1j1iA 296 8.23e+01 c.69.1.10 83977 1z02A 446 8.25e+01 1jwiB 125 8.28e+01 d.169.1.1 67384 1xdwA 331 8.31e+01 1kmqA 184 8.34e+01 c.37.1.8 84412 1pvvA 315 8.39e+01 c.78.1.1,c.78.1.1 95190,95191 1vdmA 153 8.41e+01 1dkmA 410 8.49e+01 1dklA c.60.1.2 34000 1i6aA 219 8.52e+01 c.94.1.1 61827 1nm2A 317 8.52e+01 c.19.1.1,d.58.23.1 80654,80655 2bjuA 453 8.52e+01 1rm6B 324 8.54e+01 1vybA 238 8.60e+01 d.151.1.1 108897 1fdr 248 8.60e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 2au3A 407 8.63e+01 2bg1A 494 8.67e+01 1nmoA 247 8.74e+01 c.135.1.1 91980 1hgxA 183 8.77e+01 1tc1A c.61.1.1 34027 1tfe 145 8.87e+01 1tfe d.43.1.1 38680 1b5eA 246 8.89e+01 1b5eA d.117.1.1 41056 1uasA 362 8.90e+01 b.71.1.1,c.1.8.1 88388,88389 1yxmA 303 8.92e+01 1wr2A 238 8.94e+01 1r3dA 264 8.97e+01 1w0mA 226 8.98e+01 c.1.1.1 109027