# List of top-scoring protein chains for t04-100-30-CB_burial_14_7 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 1gq6A 313 1.78e-24 c.42.1.1 70341 1d3vA 323 2.12e-22 1d3vA c.42.1.1 32559 1c4kA 730 1.56e-01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1hyeA 313 1.84e-01 2cmd c.2.1.5 61400 d.162.1.1 61401 1mnaA 298 2.00e-01 c.69.1.22 79322 1l4uA 176 4.31e-01 c.37.1.2 73568 1f2dA 341 4.94e-01 1f2dA c.79.1.1 35298 1oj7A 408 5.36e-01 1ufoA 238 5.91e-01 unknown_sccs -8303 1v3vA 333 6.47e-01 1fsz 372 7.33e-01 1fsz c.32.1.1 31750 d.79.2.1 39802 1ct9A 553 9.30e-01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1wab 232 9.42e-01 1wab c.23.10.3 31341 1pea 385 1.01e+00 1pea c.93.1.1 35662 1es9A 232 1.10e+00 1wab c.23.10.3 31340 1hetA 374 1.21e+00 2ohxA b.35.1.2 60975 c.2.1.1 60976 2ohxA 374 1.28e+00 2ohxA b.35.1.2 24669 c.2.1.1 29685 1n8kA 374 1.43e+00 b.35.1.2 80298 c.2.1.1 80299 1i24A 404 1.45e+00 c.2.1.2 83663 1g99A 408 1.49e+00 1g99A c.55.1.2 33457 c.55.1.2 33458 1t2dA 322 1.52e+00 c.2.1.5 -5920 d.162.1.1 -11487 1jvbA 347 1.60e+00 b.35.1.2 77181 c.2.1.1 77182 1ewkA 490 1.64e+00 1ewkA c.93.1.1 35712 1j0aA 325 1.83e+00 c.79.1.1 83871 1o0uA 429 1.84e+00 c.118.1.1 80743 1uslA 170 1.87e+00 c.121.1.1 -6682 1mwmA 320 1.91e+00 c.55.1.1 79580 c.55.1.1 79581 1rpjA 288 2.14e+00 2dri c.93.1.1 35656 1dbqA 289 2.28e+00 1qpzA c.93.1.1 35666 1ldg 316 2.58e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1ea5A 537 2.84e+00 2bce c.69.1.1 34592 1jq5A 370 2.94e+00 e.22.1.2 67084 1mw9X 592 2.99e+00 e.10.1.1 -11986 1nhs 447 3.11e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1ofuA 320 3.58e+00 c.32.1.1 86972 d.79.2.1 86973 1pzgA 331 3.79e+00 c.2.1.5 -5931 d.162.1.1 -11498 1vj1A 363 3.82e+00 b.35.1.2 -3728 c.2.1.1 -5752 1kkhA 317 3.83e+00 d.14.1.5 72645 d.58.26.3 72646 1iyxA 432 3.93e+00 c.1.11.1 83815 d.54.1.1 83816 1o2dA 371 4.00e+00 e.22.1.2 86591 1qrrA 394 4.13e+00 1qrrA c.2.1.2 29824 1ispA 181 4.14e+00 c.69.1.18 76778 1pjqA 457 4.21e+00 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1i6wA 181 4.36e+00 1i6wA c.69.1.18 61859 1nhp 447 4.40e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 4pfk 319 4.51e+00 3pfk c.89.1.1 35582 1guzA 310 4.62e+00 c.2.1.5 65586 d.162.1.1 65587 2pfkA 320 4.64e+00 3pfk c.89.1.1 35577 1qq9A 284 4.67e+00 1xjo c.56.5.4 33841 1vjpA 394 4.79e+00 c.2.1.3 -5897 d.81.1.3 -10480 1c3pA 375 4.81e+00 1c3pA c.42.1.2 32606 1xjo 284 4.83e+00 1xjo c.56.5.4 33843 1ceo 343 4.84e+00 1ceo c.1.8.3 28808 1gca 309 4.95e+00 1gca c.93.1.1 35659 1s6yA 450 5.09e+00 1f6dA 376 5.18e+00 1f6dA c.87.1.3 35467 1fj2A 232 5.62e+00 1auoA c.69.1.14 34720 1pbgA 468 5.64e+00 1e70M c.1.8.4 28946 1pbtA 244 5.69e+00 unknown_sccs -6866 1fcjA 322 5.72e+00 1oasA c.79.1.1 35289 1h2bA 359 6.12e+00 b.35.1.2 -3679 c.2.1.1 -5703 1ffa 214 6.12e+00 1cex unknown_sccs 31289 1sqgA 429 6.57e+00 3rabA 169 6.75e+00 1ctqA c.37.1.8 32018 1oi7A 288 6.84e+00 c.2.1.8 87049 c.23.4.1 87050 1cex 214 7.02e+00 1cex unknown_sccs 31285 1kcbA 340 7.06e+00 b.6.1.3 -2950 b.6.1.3 -2951 1nif 340 7.14e+00 1nif b.6.1.3 23048 b.6.1.3 23049 2dri 271 7.58e+00 2dri c.93.1.1 35637 1i7qB 193 7.84e+00 1qdlB c.23.16.1 61902 1ua4A 455 7.86e+00 c.72.1.3 -8416 1e3jA 352 8.10e+00 1e3jA b.35.1.2 24765 c.2.1.1 29781 1gy8A 397 8.18e+00 c.2.1.2 83376 1eceA 358 8.20e+00 1eceA c.1.8.3 28813 3pmgA 561 8.44e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1iatA 557 8.51e+00 1dqrA c.80.1.2 62123 1pwhA 327 8.58e+00 c.79.1.1 -8524 1r9dA 787 8.65e+00 1gpmA 525 8.68e+00 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1lt8A 406 8.86e+00 c.1.26.1 78186 1h2eA 207 9.05e+00 c.60.1.1 70857 1j9qA 341 9.90e+00 1nif b.6.1.3 62765 b.6.1.3 62766 1a9xA 1058 1.01e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1m1nA 491 1.04e+01 c.92.2.3 78417 1jmkC 230 1.04e+01 c.69.1.22 71747 1p0fA 373 1.07e+01 b.35.1.2 87642 c.2.1.1 87643 1te5A 257 1.07e+01 1kekA 1231 1.11e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1b5pA 385 1.16e+01 c.67.1.1 -8133 1snrA 341 1.19e+01 1qv9A 283 1.19e+01 unknown_sccs -6888 1cl8A 276 1.20e+01 1ckqA c.52.1.1 33230 1o58A 303 1.22e+01 c.79.1.1 -8503 2napA 723 1.23e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1eudA 311 1.24e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1i1nA 226 1.26e+01 c.66.1.7 71102 1scuA 288 1.26e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1j8yF 297 1.27e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1c7qA 445 1.28e+01 2pgi c.80.1.2 35307 1dhpA 292 1.29e+01 1dhpA c.1.10.1 29097 1g6oA 330 1.30e+01 1g6oA c.37.1.11 32430 1nriA 306 1.31e+01 c.80.1.3 86123 1kq3A 376 1.34e+01 e.22.1.2 68790 1f89A 291 1.36e+01 d.160.1.1 64988 1bmtA 246 1.39e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1p0iA 529 1.40e+01 c.69.1.1 -8291 1vj0A 380 1.41e+01 b.35.1.2 -3697 c.2.1.1 -5721 1mpxA 615 1.45e+01 b.18.1.13 85041 c.69.1.21 85042 1apxA 249 1.45e+01 1ryc a.93.1.1 18669 1cnv 299 1.48e+01 1cnv c.1.8.5 28989 1gvnB 287 1.53e+01 c.37.1.21 76354 1qmvA 197 1.53e+01 1qq2A c.47.1.10 33066 1hzdA 272 1.53e+01 c.14.1.3 65969 1d2kA 392 1.54e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1fc6A 388 1.56e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1jtvA 327 1.57e+01 c.2.1.2 84230 1knqA 175 1.59e+01 c.37.1.17 72786 1l8nA 679 1.61e+01 c.1.8.10 84564 d.92.2.2 84565 1p3wA 404 1.72e+01 c.67.1.3 87752 1kqpA 271 1.72e+01 c.26.2.1 72883 1j1iA 296 1.72e+01 c.69.1.10 83977 1uxy 340 1.77e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1j8mF 297 1.79e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1gdeA 389 1.82e+01 c.67.1.1 60456 1ep3B 262 1.82e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1ih8A 271 1.83e+01 2nsyA c.26.2.1 62377 1c8bA 371 1.87e+01 1c8bA c.56.1.2 59082 1rcuA 195 1.88e+01 unknown_sccs -7279 1ufkA 254 1.96e+01 unknown_sccs -8103 1jdpA 441 1.97e+01 c.93.1.1 62906 1jksA 294 1.98e+01 d.144.1.7 71710 7odcA 424 1.98e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1e4fT 419 2.00e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1jflA 228 2.00e+01 c.78.2.1 71656 c.78.2.1 71657 1j97A 211 2.09e+01 1f5sA c.108.1.4 62753 1tikA 213 2.09e+01 1auoA 218 2.10e+01 1auoA c.69.1.14 34716 1mi3A 322 2.10e+01 c.1.7.1 -5257 1b0pA 1231 2.13e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1mo9A 523 2.15e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1iibA 106 2.21e+01 1iibA c.44.2.1 32648 1efyA 350 2.24e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1o7jA 327 2.24e+01 c.88.1.1 81140 1hyhA 309 2.27e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1reqB 637 2.27e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1o5kA 306 2.28e+01 c.1.10.1 -5482 1mqoA 227 2.30e+01 1pujA 282 2.31e+01 c.37.1.8 88294 1fds 327 2.34e+01 1fds c.2.1.2 29838 1fs5A 266 2.35e+01 unknown_sccs 65044 1uwcA 261 2.37e+01 c.69.1.17 -8352 1gudA 288 2.40e+01 c.93.1.1 83326 1pl8A 356 2.41e+01 b.35.1.2 -3716 c.2.1.1 -5740 1cv2A 296 2.41e+01 1bn6A c.69.1.8 34680 1bjwA 382 2.43e+01 1bjwA c.67.1.1 34349 1oywA 523 2.44e+01 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1q1rA 431 2.44e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1h49A 512 2.46e+01 c.1.8.4 83477 1jndA 420 2.47e+01 c.1.8.5 71757 d.26.3.1 71758 1ush 550 2.48e+01 1ush d.114.1.1 40923 d.159.1.2 42079 4pgaA 337 2.49e+01 4pgaA c.88.1.1 35565 2ptd 298 2.51e+01 2plc c.1.18.2 29605 1ixkA 315 2.54e+01 unknown_sccs -8099 2btfA 375 2.55e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1nkqA 259 2.57e+01 1ll7A 392 2.59e+01 c.1.8.5 78085 d.26.3.1 78086 1m1nB 522 2.61e+01 c.92.2.3 78418 1othA 321 2.61e+01 1othA c.78.1.1 35260 c.78.1.1 35261 1s8fA 177 2.64e+01 1eswA 500 2.65e+01 1cwyA c.1.8.1 59500 1o5zA 442 2.66e+01 c.59.1.2 -7939 c.72.2.2 -8418 1dhs 344 2.66e+01 1dhs c.31.1.1 31727 1q7zA 566 2.70e+01 c.1.21.2 -5638 c.1.26.1 -5666 1mkp 144 2.74e+01 1vhrA c.45.1.1 32654 1h5qA 265 2.74e+01 1cydA c.2.1.2 60643 1lqaA 346 2.82e+01 c.1.7.1 84674 1lfwA 470 2.82e+01 c.56.5.4 77942 d.58.19.1 77943 1vhrA 184 2.82e+01 1vhrA c.45.1.1 32651 1f0lA 535 2.84e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1e3oC 160 2.85e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1jqbA 351 2.86e+01 b.35.1.2 77151 c.2.1.1 77152 8abp 306 2.87e+01 8abp c.93.1.1 35647 1trkA 680 2.90e+01 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1l7mA 211 2.91e+01 c.108.1.4 73664 1bzyA 217 2.92e+01 1qk3A c.61.1.1 34071 1ii2A 524 2.95e+01 c.91.1.1 66146 c.109.1.1 66147 1h6dA 433 3.00e+01 c.2.1.3 65656 d.81.1.5 65657 1qh8A 478 3.04e+01 1qguA c.92.2.3 35633 1gtmA 419 3.06e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1poxA 585 3.14e+01 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1k2yX 463 3.15e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1oafA 261 3.15e+01 a.93.1.1 86734 1nnlA 225 3.16e+01 c.108.1.4 85906 1p1jA 533 3.19e+01 c.2.1.3 87687 d.81.1.3 87688 1o4sA 389 3.20e+01 c.67.1.1 86620 1qvbA 481 3.22e+01 1qvbA c.1.8.4 28983 1jqeA 292 3.24e+01 c.66.1.19 71789 1nni1 174 3.27e+01 1bouB 302 3.29e+01 1bouB c.56.6.1 33859 1f8fA 371 3.30e+01 b.35.1.2 83246 c.2.1.1 83247 1vjoA 393 3.38e+01 c.67.1.3 -8173 2bc2A 227 3.39e+01 1a7tA d.157.1.1 42031 1rjdA 334 3.41e+01 unknown_sccs -8079 4tmkA 213 3.43e+01 5tmpA c.37.1.1 31930 1i2aA 219 3.53e+01 e.24.1.1 -12012 1su8A 636 3.54e+01 e.26.1.2 -12015 1dyr 206 3.56e+01 1aoeA c.71.1.1 34916 3tgl 269 3.56e+01 3tgl c.69.1.17 34733 1hp1A 516 3.56e+01 d.114.1.1 70976 d.159.1.2 70977 1e8cA 498 3.57e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1kicA 339 3.61e+01 c.70.1.1 72510 1jbkA 195 3.61e+01 c.37.1.20 71631 1po5A 476 3.62e+01 a.104.1.1 -1467 1ac5 483 3.63e+01 1ac5 c.69.1.5 34653 1eqjA 511 3.63e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1e79A 510 3.63e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1kmqA 184 3.67e+01 c.37.1.8 84412 1t64A 377 3.70e+01 1pwmA 316 3.71e+01 c.1.7.1 -5232 1b25A 619 3.74e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1hd7A 318 3.76e+01 1bix d.151.1.1 41780 1ohlA 342 3.78e+01 c.1.10.3 87035 1qo2A 241 3.81e+01 1qo2A c.1.2.1 28533 1ofgA 381 3.82e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1g0cA 364 3.84e+01 7a3hA c.1.8.3 60165 1d2nA 272 3.90e+01 1d2nA c.37.1.20 32428 1usgA 346 3.94e+01 c.93.1.1 -8635 1ojjA 402 3.96e+01 b.29.1.10 -3473 1pvdA 537 3.96e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1tx4B 178 3.97e+01 1ctqA c.37.1.8 32045 1jjyA 636 3.98e+01 1jjyA