# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2g03A 194 5.22e-18 2f6sA 201 1.12e-17 1d5rA 324 2.13e-02 1d5rA b.7.1.1,c.45.1.1 23181,32697 1f16A 192 2.23e-01 1f16A f.1.4.1 43400 1sxjE 354 5.32e-01 a.80.1.1,c.37.1.20 106089,106090 1j6wA 175 9.30e-01 1j98A d.185.1.2 62663 1j98A 157 1.68e+00 1j98A d.185.1.2 62755 1u00A 227 2.38e+00 1y71A 130 3.69e+00 2bjfA 329 3.92e+00 1n1bA 549 3.96e+00 a.102.4.1,a.128.1.3 79799,79800 1nzoA 363 4.63e+00 b.105.1.1,e.3.1.1 92383,92384 1nozA 388 4.88e+00 1clqA c.55.3.5 33715 2b3oA 532 4.93e+00 1ea2A 131 5.25e+00 d.17.4.3 64860 1z6fA 363 5.92e+00 1pu1A 94 6.29e+00 d.266.1.1 104307 1osa 148 6.56e+00 1cll a.39.1.5 17300 1uc8A 280 7.26e+00 c.30.1.6,d.142.1.7 99165,99166 1y5eA 169 7.30e+00 1noyA 388 7.68e+00 1clqA c.55.3.5 33713 1phnA 162 8.66e+00 1cpcA a.1.1.3 15641 1oh0A 131 8.93e+00 d.17.4.3 87004 2bjkA 516 9.25e+00 1opy 131 1.02e+01 1opy d.17.4.3 38113 1l4zB 136 1.05e+01 d.15.5.1 77704 1uzbA 516 1.06e+01 c.82.1.1 100220 1kpmA 121 1.07e+01 a.133.1.2 72844 1fv0A 121 1.08e+01 a.133.1.2 70147 1ppjD 241 1.13e+01 a.3.1.3,f.23.11.1 104258,104259 1v9vA 114 1.16e+01 1q1lA 401 1.19e+01 d.258.1.1 95591 1be3D 241 1.22e+01 1be3D a.3.1.3,f.23.11.1 15955,43666 1dmmA 131 1.24e+01 1opy d.17.4.3 38114 1l4dB 122 1.24e+01 d.15.5.1 77684 1mc2A 122 1.27e+01 a.133.1.2 74622 1euvA 221 1.31e+01 1euvA d.3.1.7 37133 1sqzA 121 1.39e+01 a.133.1.2 98975 1tj9A 121 1.39e+01 a.133.1.2 107015 1tk4A 121 1.39e+01 a.133.1.2 107073 1zwpA 121 1.39e+01 2g58A 121 1.39e+01 1f5nA 592 1.45e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2shpA 525 1.55e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1gz6A 319 1.57e+01 c.2.1.2 76410 1sspE 223 1.57e+01 3eugA c.18.1.1 31009 1akz 223 1.67e+01 3eugA c.18.1.1 31007 1avoB 140 1.67e+01 1avoB 1qdbA 473 1.74e+01 1qdbA a.138.1.3 19688 2fiyA 309 1.77e+01 1exrA 148 1.80e+01 1cll a.39.1.5 17299 1ymtA 246 1.92e+01 1hkvA 453 1.96e+01 b.49.2.3,c.1.6.1 83559,83560 1o97D 320 1.99e+01 c.26.2.3,c.31.1.2 81233,81234 1js3A 486 2.02e+01 c.67.1.6 67215 1oheA 348 2.09e+01 c.45.1.1,c.45.1.1 87013,87014 1qysA 106 2.19e+01 k.41.1.1 96603 1b24A 188 2.30e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1y1xA 191 2.33e+01 2bh7A 261 2.44e+01 2bgxA 261 2.44e+01 1yuzA 202 2.50e+01 2f02A 323 2.56e+01 2awdA 323 2.57e+01 2vhbA 146 2.61e+01 2vhbA a.1.1.2 15629 2gaiA 633 2.63e+01 1nj4A 363 2.64e+01 b.105.1.1,e.3.1.1 80545,80546 1g99A 408 2.74e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 2f1nA 262 2.76e+01 1qoxN 449 2.78e+01 1qoxN c.1.8.4 28978 1d0hA 469 2.78e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1z2nX 324 2.78e+01 2d0sA 79 2.83e+01 1diwA 441 2.96e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 1w98B 283 2.99e+01 1bccD 241 3.01e+01 1be3D a.3.1.3,f.23.11.1 15959,43698 2d8aA 348 3.03e+01 1flzA 228 3.07e+01 3eugA c.18.1.1 31027 1fgyA 127 3.20e+01 1faoA b.55.1.1 26976 1gd5A 130 3.25e+01 1gd5A d.189.1.1 60439 1gtzA 156 3.25e+01 c.23.13.1 70539 2vhbB 146 3.33e+01 2vhbA a.1.1.2 15630 1f7uA 607 3.42e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1eswA 500 3.48e+01 1cwyA c.1.8.1 59500 2cw9A 194 3.52e+01 1rypG 244 3.55e+01 d.153.1.4 41938 1f0yA 302 3.61e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1a8d 452 3.67e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1jlvA 209 3.69e+01 a.45.1.1,c.47.1.5 71729,71730 3eugA 229 3.69e+01 3eugA c.18.1.1 31018 2apoA 357 3.72e+01 1euiA 228 3.72e+01 3eugA c.18.1.1 31028 3pbgA 468 3.73e+01 1e70M c.1.8.4 28951 1bvwA 360 3.80e+01 1bvwA c.6.1.1 30668 1bam 213 3.82e+01 1bam c.52.1.3 33285 1a87 321 3.90e+01 1a87 f.1.1.1 43380 1zyeA 220 3.94e+01 1oc7A 364 3.94e+01 c.6.1.1 86794 1tw9A 206 3.97e+01 a.45.1.1,c.47.1.5 107381,107382 1bif 469 3.98e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1brlA 355 3.99e+01 1lucA c.1.16.1 29553 2fjbA 643 4.01e+01 1x42A 232 4.03e+01 2bvwA 362 4.07e+01 1bvwA c.6.1.1 30666 1jnrA 643 4.16e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1eugA 229 4.23e+01 3eugA c.18.1.1 31021 1pba 81 4.25e+01 1pytA d.58.3.1 39067 1aj4 161 4.29e+01 1ncx a.39.1.5 17244 1b3rA 431 4.39e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1f3iA 481 4.44e+01 1b7eA 1xnfA 275 4.53e+01 1wddS 128 4.64e+01 1fit 147 4.66e+01 1fit d.13.1.1 37499 2minA 491 4.70e+01 1qguA c.92.2.3 35609 1ijgA 309 4.70e+01 1fouA e.27.1.1 62493 1cqxA 403 4.70e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1js1X 324 4.81e+01 c.78.1.1,c.78.1.1 71834,71835 2hdhA 293 4.83e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 1wy7A 207 4.86e+01 2fnaA 357 4.86e+01 4eugA 229 4.93e+01 3eugA c.18.1.1 31019 2coeA 120 4.97e+01 1z6bA 154 5.03e+01 1esgA 213 5.05e+01 1bam c.52.1.3 33286 1j1iA 296 5.14e+01 c.69.1.10 83977 1ow4A 129 5.14e+01 a.39.2.1 93628 2arhA 203 5.16e+01 1pbgA 468 5.18e+01 1e70M c.1.8.4 28946 1tgoA 773 5.26e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 3bifA 468 5.29e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1qi6A 475 5.32e+01 1euhA c.82.1.1 35373 1vkcA 158 5.34e+01 1wiwA 290 5.34e+01 2fhi 147 5.35e+01 1fit d.13.1.1 37505 2btvA 901 5.42e+01 2btvA e.28.1.1 43376 1m5yA 408 5.47e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1nrwA 288 5.53e+01 c.108.1.10 86128 1h5wA 309 5.57e+01 e.27.1.1 65635 1cwyA 500 5.58e+01 1cwyA c.1.8.1 28789 2erfA 209 5.63e+01 1innA 166 5.65e+01 1j98A d.185.1.2 62608 1vjeA 166 5.65e+01 d.185.1.2 100807 2bifA 469 5.66e+01 1bif c.37.1.7,c.60.1.4 31963,34009 1ocnA 362 5.68e+01 c.6.1.1 86808 2he7A 283 5.69e+01 1tazA 365 5.70e+01 a.211.1.2 106734 1r2aA 46 5.81e+01 1r2aA a.31.1.1 16995 1o12A 376 5.86e+01 b.92.1.5,c.1.9.10 80758,80759 1enp 312 5.91e+01 1enp c.2.1.2 29906 1fs7A 485 5.95e+01 1qdbA a.138.1.3 19691 1wmdA 434 5.96e+01 b.18.1.20,c.41.1.1 109408,109409 1xdzA 240 6.00e+01 2iw2A 494 6.05e+01 1hl2A 297 6.18e+01 c.1.10.1 83581 1o7kA 131 6.19e+01 d.189.1.1 81144 1fouA 309 6.23e+01 1fouA e.27.1.1 43364 1w2fA 276 6.36e+01 d.143.1.3 109125 1d0iA 156 6.42e+01 2dhqA c.23.13.1 31383 1qghA 156 6.63e+01 1qghA a.25.1.1 16728 1p0iA 529 6.65e+01 c.69.1.1 93867 1kb9D 246 6.69e+01 a.3.1.3,f.23.11.1 77317,77318 1d4fA 431 6.71e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1wurA 220 6.73e+01 1t6eX 381 6.73e+01 b.50.1.2 106564 1kyoD 248 6.76e+01 a.3.1.3,f.23.11.1 73254,73255 1eno 312 6.77e+01 1enp c.2.1.2 29905 2cybA 323 6.86e+01 1d7oA 297 6.95e+01 1enp c.2.1.2 29907 1x0lA 333 6.97e+01 2fq3A 104 7.04e+01 1xwfA 431 7.08e+01 1ed5A 444 7.13e+01 1nseA d.174.1.1 42530 1d1vA 444 7.14e+01 1nseA d.174.1.1 59101 1ebdA 455 7.15e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2auhB 59 7.22e+01 1fhvA 323 7.22e+01 1fhuA c.1.11.2,d.54.1.1 29235,38879 1cvrA 435 7.25e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1yg9A 330 7.26e+01 1xl3C 92 7.29e+01 2cwlA 302 7.30e+01 1ezvD 245 7.30e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 2cwoA 197 7.33e+01 1vkmA 297 7.42e+01 c.138.1.1 108670 1ly7A 121 7.44e+01 d.82.2.1 74339 1ypyA 184 7.55e+01 1vp7A 100 7.58e+01 1xxoA 147 7.65e+01 1w9aA 147 7.65e+01 1cpy 421 7.65e+01 1ivyA c.69.1.5 34651 1ag8A 499 7.88e+01 1bpwA c.82.1.1 35341 1wolA 122 8.06e+01 1ysc 421 8.08e+01 1ivyA c.69.1.5 34652 1ubkL 534 8.08e+01 e.18.1.1 88422 1ht6A 405 8.09e+01 b.71.1.1,c.1.8.1 83629,83630 1l6eA 46 8.12e+01 a.31.1.1 73607 1y4lA 121 8.16e+01 1dvoA 152 8.23e+01 1dvoA a.136.1.1 19623 1htqA 477 8.29e+01 d.15.9.1,d.128.1.1 71035,71036 1h2aL 567 8.31e+01 1h2rL e.18.1.1 43299 1wuiL 534 8.40e+01 1mnp 357 8.42e+01 1arv a.93.1.1 18668 2h03A 291 8.43e+01 1m1nA 491 8.46e+01 c.92.2.3 78417 1nepA 130 8.53e+01 b.1.18.7 80440 1iw0A 215 8.56e+01 a.132.1.1 83720 1mn1 357 8.57e+01 1arv a.93.1.1 18667 1yydA 357 8.58e+01 1wzdA 215 8.62e+01 2aq6A 147 8.65e+01 1h2rL 534 8.69e+01 1h2rL e.18.1.1 43298 1cmbA 104 8.73e+01 1cmbA a.43.1.5 17460 1sgwA 214 8.83e+01 c.37.1.12 105541 1af5 126 8.89e+01 1bp7A d.95.2.1 40572 2fupA 168 8.91e+01 1kq6A 141 8.92e+01 d.189.1.1 91020 1jflA 228 8.95e+01 c.78.2.1,c.78.2.1 71656,71657