# List of top-scoring protein chains for t04-100-30-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.soe.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 1azsA 220 6.87e-29 1azsA d.58.29.1 39416 2w01A 208 2.45e-28 2wz1A 219 1.19e-27 1wc1A 226 4.74e-27 d.58.29.1 114492 1wc3A 219 5.97e-27 d.58.29.1 114495 1azsB 212 6.94e-27 1azsA d.58.29.1 39423 1ab8A 220 4.40e-24 1azsA d.58.29.1 39414 1fx2A 235 4.02e-22 1fx2A d.58.29.1 39430 1ybtA 184 5.72e-21 1y10A 407 1.01e-19 3i5aA 334 1.43e-04 3iclA 171 2.38e-04 2qv6A 268 3.57e-04 3i5bA 179 2.64e-03 3i5cA 206 6.99e-03 3breA 358 1.03e-02 1icpA 376 8.06e-02 1oyc c.1.4.1 62270 2jejA 358 9.38e-02 d.240.1.1,e.8.1.7 138284,138285 3khrA 341 1.10e-01 1jx4A 352 2.23e-01 d.240.1.1,e.8.1.7 90378,90379 3lmbA 165 3.19e-01 1w25A 459 3.79e-01 c.23.1.1,c.23.1.1,d.58.29.2 114090,114091,114092 2x2bA 78 4.60e-01 2b05A 246 5.54e-01 1f80D 81 5.96e-01 1acp a.28.1.1 59686 2vwkA 773 7.21e-01 c.55.3.5,e.8.1.1 153677,153678 2o02A 230 8.34e-01 a.118.7.1 148541 2dfaA 250 8.97e-01 c.6.2.5 131469 2dskA 311 9.03e-01 3gg4A 554 1.29e+00 1uzbA 516 1.59e+00 c.82.1.1 100220 3l0qA 554 1.77e+00 2dplA 308 1.85e+00 1qjbA 245 1.89e+00 1qjaA a.118.7.1 19202 3futA 271 2.05e+00 2bjkA 516 2.05e+00 3a46A 289 2.21e+00 3g6mA 406 2.22e+00 1p4cA 380 2.26e+00 c.1.4.1 94100 2jjfA 449 2.28e+00 3ezuA 342 2.28e+00 1qjaA 245 2.40e+00 1qjaA a.118.7.1 19204 1vgjA 184 2.51e+00 2cjgA 449 2.53e+00 2o3iA 405 2.54e+00 e.73.1.1 148577 3i4jA 430 2.64e+00 1wywA 230 3.09e+00 c.18.1.2 144566 2yy7A 312 3.19e+00 2jjeA 449 3.24e+00 1qqcA 773 3.29e+00 1tgoA c.55.3.5,e.8.1.1 33724,43013 3jsaA 328 3.35e+00 1w6tA 444 3.35e+00 c.1.11.1,d.54.1.1 120670,120671 3hywA 430 3.39e+00 2qp2A 511 3.45e+00 1kutA 230 3.58e+00 d.143.1.1 73017 3hheA 255 3.76e+00 1zxxA 319 3.76e+00 2gifA 1057 3.76e+00 3giyA 380 4.11e+00 3c8mA 331 4.20e+00 3a42A 295 4.29e+00 3bs4A 260 4.70e+00 2c1nA 258 4.81e+00 a.118.7.1 129640 3gvgA 283 4.82e+00 3lw1A 253 4.97e+00 2jjhA 449 4.98e+00 3hmuA 472 5.06e+00 3ef2A 293 5.30e+00 1gpmA 525 5.35e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 3d6kA 422 5.63e+00 2ihoA 293 5.69e+00 b.42.2.1,d.3.1.18 147681,147682 1rypA 243 5.82e+00 1pmaA d.153.1.4 41932 3fcrA 458 6.44e+00 2j8sA 1055 6.64e+00 3bamA 213 6.77e+00 1bam c.52.1.3 33288 3hvaA 177 6.84e+00 1g0uG 252 7.28e+00 d.153.1.4 41952 2vg0A 227 7.39e+00 2jkgA 179 7.43e+00 1hc7A 477 7.79e+00 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1v6tA 255 7.81e+00 c.6.2.5 113550 1vljA 407 7.87e+00 e.22.1.2 108832 2es7A 142 8.22e+00 c.47.1.20 132314 2dwuA 276 8.85e+00 1gntA 553 8.93e+00 e.26.1.1 70290 2zyhA 475 8.94e+00 2dgmA 466 9.15e+00 c.67.1.6 131508 1knxA 312 9.31e+00 c.98.2.1,c.91.1.2 77459,77460 3ignA 177 9.32e+00 1nnwA 252 9.60e+00 d.159.1.5 80674 1vkmA 297 1.04e+01 c.138.1.1 108670 3h4tA 404 1.06e+01 2br9A 234 1.09e+01 2aydA 76 1.11e+01 2vvtA 290 1.13e+01 2jesA 503 1.18e+01 2vg1A 228 1.27e+01 1n5dA 288 1.27e+01 c.2.1.2 80030 2dgkA 452 1.28e+01 2a2cA 478 1.31e+01 3bvfA 181 1.34e+01 1r5yA 386 1.34e+01 c.1.20.1 97134 1vehA 92 1.36e+01 d.52.8.1 113635 1o5xA 248 1.48e+01 c.1.1.1 92528 3e70C 328 1.49e+01 1brwA 433 1.50e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2ibnA 250 1.52e+01 a.211.1.4 137195 2paqA 201 1.53e+01 a.211.1.1 139643 2qvbA 297 1.55e+01 1tllA 688 1.59e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 3bldA 386 1.59e+01 2zyiA 475 1.59e+01 2zysA 479 1.60e+01 2fmyA 220 1.61e+01 1wj2A 78 1.65e+01 g.79.1.1 114689 1pmmA 466 1.67e+01 c.67.1.6 94901 1oaoA 674 1.67e+01 e.26.1.2 86744 1nqkA 381 1.68e+01 c.1.16.4 92050 1ja1A 622 1.70e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 3istA 269 1.77e+01 1u8xX 472 1.79e+01 c.2.1.5,d.162.1.2 107741,107742 2bbeA 108 1.80e+01 2o98A 242 1.80e+01 a.118.7.1 138950 3cx5A 431 1.81e+01 d.185.1.1,d.185.1.1 157076,157077 2vvyA 169 1.83e+01 3ba1A 333 1.83e+01 2nvpA 435 1.83e+01 a.102.1.8 148478 3by4A 212 1.86e+01 1sw2A 275 1.89e+01 c.94.1.1 106064 1yauA 233 1.90e+01 d.153.1.4 122851 2it9A 127 1.91e+01 d.18.1.3 137634 1pxgA 382 1.93e+01 c.1.20.1 95287 1n3lA 372 1.99e+01 c.26.1.1 79966 1zavA 180 1.99e+01 d.58.62.1 145962 2vccA 891 2.00e+01 2iueA 212 2.02e+01 1t8hA 277 2.07e+01 d.194.1.2 106664 2q8uA 336 2.12e+01 1nu4A 97 2.13e+01 d.58.7.1 80731 2znmA 195 2.14e+01 2gzmA 267 2.15e+01 2o2iA 300 2.16e+01 1yarA 233 2.25e+01 d.153.1.4 122837 2fcaA 213 2.27e+01 c.66.1.53 133262 3cypB 138 2.30e+01 2v64D 207 2.31e+01 2b4vA 468 2.32e+01 a.160.1.4,d.218.1.10 127864,127865 2isbA 192 2.32e+01 c.8.9.1 137601 1assA 159 2.35e+01 c.8.5.2 30818 3hf2A 482 2.36e+01 1ass 159 2.37e+01 1a6dA 2zyrA 484 2.43e+01 2hwkA 320 2.44e+01 2higA 487 2.49e+01 2egxA 269 2.53e+01 2ftpA 302 2.54e+01 2vpnA 316 2.57e+01 1y8aA 332 2.58e+01 c.108.1.24 145913 1c4xA 285 2.61e+01 1c4xA c.69.1.10 34684 1ys1X 320 2.67e+01 2q7eA 291 2.72e+01 1urnA 97 2.72e+01 1urnA d.58.7.1 39153 3lsgA 103 2.73e+01 1q9jA 422 2.75e+01 c.43.1.2,c.43.1.2 104590,104591 2obdA 476 2.77e+01 1ezvA 430 2.80e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 2yvaA 196 2.81e+01 2qaiA 111 2.82e+01 2jfzA 255 2.83e+01 1qpaA 345 2.83e+01 1arv a.93.1.1 18585 1txnA 328 2.88e+01 d.248.1.1 112779 1cvl 319 2.92e+01 1cvl 1cvlA 319 2.93e+01 c.69.1.18 34786 1ewqA 765 2.98e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1u6bA 98 2.99e+01 d.58.7.1 107703 2hlzA 312 3.04e+01 3gyyA 341 3.04e+01 2prsA 284 3.06e+01 3h2dA 155 3.07e+01 3gb0A 373 3.09e+01 1u5fA 148 3.13e+01 b.55.1.1 119542 2pa6A 427 3.14e+01 1zj8A 566 3.15e+01 d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 146003,146004,146005,146006 3l55A 353 3.17e+01 3l22A 441 3.21e+01 2ij2A 470 3.24e+01 a.104.1.1 137449 2nliA 368 3.25e+01 2k53A 76 3.31e+01 3k95A 669 3.32e+01 3bs5B 80 3.33e+01 2fp4B 395 3.37e+01 c.23.4.1,d.142.1.4 133897,133898 2rbdA 171 3.38e+01 2p8gA 162 3.41e+01 3c9hA 355 3.43e+01 2parA 201 3.43e+01 3hylA 690 3.49e+01 2wabA 341 3.50e+01 1kb9A 431 3.52e+01 d.185.1.1,d.185.1.1 77311,77312 2dvtA 327 3.54e+01 c.1.9.15 131793 2wk6A 482 3.55e+01 2q01A 497 3.56e+01 1xx7A 184 3.59e+01 a.211.1.1 116143 2p71A 132 3.60e+01 a.39.2.1 139516 3if2A 444 3.62e+01 3i04A 673 3.69e+01 3hfyA 386 3.76e+01 1wmaA 276 3.81e+01 c.2.1.2 121042 1knyA 253 3.83e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 2fymA 431 3.83e+01 c.1.11.1,d.54.1.1 134379,134380 1tyeB 440 3.83e+01 b.1.15.1,c.62.1.1,g.16.2.1 112830,112831,112832 3dvxA 196 3.84e+01 1xm3A 264 3.85e+01 c.1.31.1 115461 1sv6A 269 3.89e+01 d.177.1.1 106043 1gwiA 411 3.95e+01 a.104.1.1 76364 1wolA 122 3.97e+01 2gc9A 179 3.97e+01 b.60.1.6 134972 1iyxA 432 3.99e+01 c.1.11.1,d.54.1.1 83815,83816 1s8nA 205 4.04e+01 c.23.1.1 105374 3a0yA 152 4.05e+01 1jqgA 433 4.08e+01 c.56.5.1,d.58.3.1 71791,71792 1b80A 351 4.09e+01 1arv a.93.1.1 18579 1eudB 396 4.09e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 3hb9A 1150 4.12e+01 1n8fA 350 4.14e+01 c.1.10.4 85397 3lnpA 468 4.30e+01 1wz9A 375 4.36e+01 2ptzA 432 4.36e+01 c.1.11.1,d.54.1.1 149844,149845 3d6iA 112 4.44e+01 3e38A 343 4.45e+01 1wznA 252 4.47e+01 c.66.1.43 121525 3m49A 690 4.48e+01 3hjzA 334 4.49e+01 1pud 386 4.54e+01 1pud 1bu7A 455 4.54e+01 1bu7A a.104.1.1 18937 1o9dA 260 4.54e+01 a.118.7.1 86689 1tb3A 352 4.54e+01 c.1.4.1 119205 2hqqA 298 4.55e+01 1ede 310 4.59e+01 1b6g 2dj5A 133 4.67e+01 c.92.1.3 131536 1b85A 351 4.71e+01 1arv a.93.1.1 18581 3ijdA 315 4.71e+01 1ixmA 192 4.74e+01 1ixmA d.123.1.1 41114 1cnt1 187 4.81e+01 1cnt3 3cetA 334 4.92e+01 1go4A 205 4.95e+01 d.135.1.1 70292 1o2dA 371 4.98e+01 e.22.1.2 86591 1aipA 405 4.99e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 3ii4A 466 5.03e+01 1e79D 482 5.07e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 2zceA 291 5.09e+01 1gg1A 350 5.16e+01 1qr7A c.1.10.4 29187 2geyA 158 5.22e+01 d.17.4.9 147114 3e1bZ 213 5.25e+01 3fi7A 183 5.26e+01 2o1xA 629 5.27e+01 3jslA 318 5.31e+01 3dl0A 216 5.36e+01 2absA 383 5.47e+01 c.72.1.1 126534 3hvwA 176 5.47e+01 2zueA 629 5.50e+01 3gxrA 187 5.51e+01 2hhjA 267 5.52e+01 c.60.1.1 136497 1wyuA 438 5.53e+01 c.67.1.7 121452 1xhcA 367 5.61e+01 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2v8hA 474 5.65e+01 2rghA 571 5.75e+01 1ps9A 671 5.76e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 2wzkA 391 5.82e+01 1rypJ 204 5.83e+01 d.153.1.4 41878 3kfoA 288 5.85e+01 2hfnA 153 5.85e+01 1kmdA 117 5.88e+01 d.189.1.1 72744 2vsfA 602 5.91e+01 2i2xA 461 5.92e+01 2zivA 311 5.99e+01 1t9xA 1049 6.00e+01 1nv8A 284 6.02e+01 c.66.1.30 86224 3b8bA 292 6.02e+01 1ohtA 215 6.06e+01 d.118.1.1 87036 1rrvA 416 6.07e+01 c.87.1.5 105083 3bmxA 642 6.10e+01 1f8fA 371 6.11e+01 b.35.1.2,c.2.1.1 83246,83247 1puzA 82 6.12e+01 a.218.1.1 104320 2w2aA 194 6.14e+01 2fjcA 156 6.16e+01 a.25.1.1 133559 1vmeA 410 6.16e+01 c.23.5.1,d.157.1.3 108893,108894 1aj8A 371 6.16e+01 1aj8A a.103.1.1 18900 1ehyA 294 6.21e+01 1ehyA c.69.1.11 34693 2zwiA 373 6.21e+01 3m5wA 322 6.34e+01 2vfxA 206 6.35e+01 1x38A 602 6.39e+01 c.1.8.7,c.23.11.1 121655,121656 2qghA 425 6.40e+01 1vlmA 219 6.43e+01 c.66.1.41 108836 3ggdA 245 6.44e+01 3kdqA 154 6.45e+01 1x9bA 53 6.48e+01 a.10.2.1 114982 2w2jA 291 6.53e+01 2e1nA 138 6.71e+01 3h75A 350 6.72e+01 2gp6A 434 6.75e+01 1aj2 282 6.79e+01 1aj2 1aj2A 282 6.79e+01 c.1.21.1 29665 1hqmC 1119 6.79e+01 i.8.1.1 45974 2e5yA 133 6.83e+01 2va8A 715 6.87e+01 1htp 131 6.94e+01 1htp 3im3A 50 6.99e+01 1wlsA 328 7.00e+01 1xuqA 212 7.01e+01 1y791 680 7.09e+01 1pgtA 210 7.09e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 3hhyA 280 7.11e+01 3i5tA 476 7.13e+01 3c0bA 334 7.15e+01 2o8lA 274 7.21e+01 b.47.1.1 138932 4enl 436 7.28e+01 4enl 1o4sA 389 7.29e+01 c.67.1.1 86620 1uch 230 7.30e+01 1uch 2wk7A 393 7.38e+01 1zuoA 186 7.44e+01 d.20.1.1 125680 1zo4A 473 7.52e+01 3k41A 160 7.56e+01 1ecpA 238 7.56e+01 1ecpA c.56.2.1 33775 1tzvA 142 7.63e+01 a.79.1.1 107526 1syyA 346 7.66e+01 a.25.1.2 106126 1gpeA 587 7.66e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 2al2A 436 7.66e+01 c.1.11.1,d.54.1.1 126953,126954 1l9cA 389 7.67e+01 c.3.1.2,d.16.1.3 77815,77816 3d3aA 612 7.72e+01 1yqzA 438 7.75e+01 2q8pA 260 7.81e+01 2du2A 374 7.84e+01 1ymkA 175 7.84e+01 c.46.1.1 123699 2ddzA 190 7.87e+01 d.104.1.4 146486 3e6iA 476 7.89e+01 2brjA 188 7.91e+01 b.159.1.1 146213 1xfrA 128 7.95e+01