# List of top-scoring protein chains for t04-100-30-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 2bcgY 206 8.61e-23 1ukvY 206 9.77e-23 c.37.1.8 107918 1r2qA 170 2.27e-22 c.37.1.8 96874 1huqA 164 7.08e-22 1byuA c.37.1.8 32020 1x3sA 195 9.37e-22 1ek0A 170 1.07e-21 1ctqA c.37.1.8 32076 2bmeA 186 1.19e-21 2a5jA 191 1.20e-21 1r4aA 165 1.23e-21 c.37.1.8 96986 1mr3F 181 1.38e-21 c.37.1.8 79422 2a5dA 175 1.45e-21 1oivA 191 1.60e-21 c.37.1.8 93076 3rabA 169 1.84e-21 1ctqA c.37.1.8 32018 1z0jA 170 2.04e-21 1hurA 180 3.16e-21 1hurA c.37.1.8 32052 1uptA 171 3.63e-21 c.37.1.8 99767 2gf9A 189 3.66e-21 1yzqA 170 4.12e-21 1r8sA 164 6.23e-21 c.37.1.8 97247 1uptC 170 6.24e-21 c.37.1.8 99769 1fzqA 181 6.88e-21 1hurA c.37.1.8 32060 2f9lA 199 6.93e-21 1o3yA 166 9.35e-21 c.37.1.8 86618 1kshA 186 1.12e-20 c.37.1.8 72914 1oixA 191 1.30e-20 1yzgA 179 1.58e-20 1z06A 189 1.91e-20 1vg8A 207 3.90e-20 c.37.1.8 108606 1s8fA 177 3.91e-20 c.37.1.8 105370 1z08A 170 4.13e-20 2b6hA 192 5.05e-20 2g6bA 180 8.05e-20 1zj6A 187 9.41e-20 1wmsA 177 1.13e-19 c.37.1.8 109414 1zd9A 188 2.16e-19 1ky3A 182 3.69e-18 c.37.1.8 73193 1z2aA 168 3.73e-18 1kao 167 9.01e-18 1ctqA c.37.1.8 32014 2a9kA 187 9.10e-18 1u8zA 168 1.60e-17 1ctqA 166 9.85e-17 1ctqA c.37.1.8 31965 1i2mA 216 1.00e-16 1byuA c.37.1.8 61568 2fn4A 181 1.51e-16 1x1rA 178 2.39e-16 2eryA 172 5.92e-16 1xtqA 177 8.34e-16 2erxA 172 9.04e-16 1tx4B 178 1.21e-15 1ctqA c.37.1.8 32045 1f6bA 198 1.73e-15 c.37.1.8 64986 1kmqA 184 2.18e-15 c.37.1.8 84412 2atvA 196 8.59e-15 2atxA 194 9.13e-15 1mh1 186 9.54e-15 1eesA c.37.1.8 32002 2c2hA 192 1.54e-14 1nf3A 195 3.28e-14 c.37.1.8 85594 1m7bA 184 2.08e-13 c.37.1.8 74572 2gjsA 176 1.53e-12 2bmjA 178 1.18e-09 1lnzA 342 3.73e-08 b.117.1.1,c.37.1.8 78112,78113 1wf3A 301 6.64e-08 1mkyA 439 1.06e-07 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1udxA 416 2.74e-07 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1svsA 353 4.21e-07 c.37.1.8 106051 1cipA 353 7.35e-07 1cipA a.66.1.1,c.37.1.8 18210,32093 2cxxA 190 1.00e-06 1egaA 301 1.62e-06 1egaA c.37.1.8,d.52.3.1 32150,38836 1sviA 195 7.67e-06 c.37.1.8 106048 1tadA 324 7.67e-06 1cipA a.66.1.1,c.37.1.8 18194,32077 1tag 324 1.38e-05 1cipA a.66.1.1,c.37.1.8 18197,32080 1nrjB 218 2.71e-05 c.37.1.8 86125 1zcbA 362 4.61e-05 1dar 691 1.59e-04 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1kk1A 410 2.02e-04 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1g7sA 594 2.55e-04 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1h65A 270 2.69e-04 c.37.1.8 65640 1puiA 210 4.38e-04 c.37.1.8 88292 1s0uA 408 8.62e-04 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1wdtA 665 2.56e-03 2c78A 405 4.08e-03 1ha3A 405 5.78e-03 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1exmA 405 6.40e-03 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1jnyA 435 7.65e-03 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ni3A 392 3.17e-02 c.37.1.8,d.15.10.2 80531,80532 1pujA 282 4.89e-02 c.37.1.8 88294 1tq4A 413 6.86e-02 c.37.1.8 107201 1htwA 158 8.96e-02 c.37.1.18 71083 1lv7A 257 1.02e-01 c.37.1.20 78232 1d2eA 397 1.30e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1ye8A 178 1.68e-01 1f60A 458 1.97e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2b8wA 328 2.34e-01 1q0bA 367 2.56e-01 c.37.1.9 95502 1x88A 359 2.70e-01 1exbA 332 4.98e-01 1qrqA c.1.7.1 28666 2akaB 299 5.08e-01 1b0uA 262 5.09e-01 1b0uA c.37.1.12 32370 1efm 393 5.27e-01 1efcA c.37.1.8 64732 1n0uA 842 6.03e-01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1zsxA 347 7.10e-01 1f5nA 592 7.23e-01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2f1rA 171 8.27e-01 2bbsA 290 8.39e-01 1z47A 355 8.48e-01 1vplA 256 1.75e+00 1t9hA 307 1.94e+00 1nsf 273 1.96e+00 1d2nA c.37.1.20 32429 1jx2B 315 2.56e+00 c.37.1.8 67404 1l4uA 176 2.63e+00 c.37.1.2 73568 1zu4A 320 2.74e+00 2carA 196 2.91e+00 1g291 372 3.22e+00 1g291 1dbfA 127 3.44e+00 2chsA d.79.1.2 39761 1d2nA 272 3.47e+00 1d2nA c.37.1.20 32428 1in4A 334 3.59e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1xmiA 291 3.71e+00 1e94F 449 4.23e+00 1do0A c.37.1.20 32443 1e79A 510 4.65e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1xx6A 191 5.20e+00 1i6iA 366 5.24e+00 1bg2 c.37.1.9 61844 2ck3A 510 5.24e+00 1h8eA 510 6.13e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2cbzA 237 6.14e+00 1h3qA 140 7.22e+00 d.110.4.3 76652 1jalA 363 7.22e+00 c.37.1.8,d.15.10.2 84138,84139 1vfvA 366 7.23e+00 c.37.1.9 108592 1rkbA 173 7.33e+00 1r0wA 286 7.42e+00 c.37.1.12 96754 1fts 295 7.61e+00 1ng1 a.24.13.1,c.37.1.10 16968,32279 1bkb 136 8.35e+00 1bkb b.34.5.2,b.40.4.5 24609,25341 1u09A 476 9.53e+00 e.8.1.4 107545 1ub0A 258 9.92e+00 c.72.1.2 88394 1rj9A 304 1.00e+01 a.24.13.1,c.37.1.10 97553,97554 1gky 187 1.04e+01 1gky c.37.1.1 31839 1gudA 288 1.05e+01 c.93.1.1 83326 1rpjA 288 1.05e+01 2dri c.93.1.1 35656 1oxsC 353 1.11e+01 b.40.6.3,c.37.1.12 87519,87520 1f20A 435 1.16e+01 b.43.4.1,c.25.1.4 64932,64933 1q7bA 244 1.20e+01 c.2.1.2 96026 2fnaA 357 1.21e+01 1g6oA 330 1.21e+01 1g6oA c.37.1.11 32430 1un8A 552 1.23e+01 c.119.1.2,a.208.1.1 103806,99661 1s6yA 450 1.26e+01 c.2.1.5,d.162.1.2 105314,105315 1yrbA 262 1.26e+01 2b82A 211 1.27e+01 1yqtA 538 1.33e+01 1xfiA 367 1.33e+01 e.50.1.1 109584 2ax4A 198 1.35e+01 1ex7A 186 1.36e+01 1gky c.37.1.1 59537 1vmaA 306 1.37e+01 a.24.13.1,c.37.1.10 108887,108888 1z6gA 218 1.38e+01 1tllA 688 1.45e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1oxxK 353 1.46e+01 b.40.6.3,c.37.1.12 93715,93716 1uf3A 228 1.56e+01 d.159.1.6 99317 1jbkA 195 1.56e+01 c.37.1.20 71631 1rmwA 212 1.59e+01 1nstA 325 1.62e+01 1nstA c.37.1.5 31951 1nijA 318 1.62e+01 c.37.1.10,d.237.1.1 85741,85742 1ly1A 181 1.65e+01 c.37.1.1 74334 1n8nA 212 1.65e+01 c.108.1.12 91706 2ez3A 302 1.70e+01 1gnlA 544 1.83e+01 e.26.1.1 70287 1azwA 313 1.89e+01 1qtrA c.69.1.7 34658 1hdoA 206 1.91e+01 1he2A c.2.1.2 60965 1evyA 366 1.92e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1in6A 334 1.94e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2freA 200 1.97e+01 1ii2A 524 1.99e+01 c.91.1.1,c.109.1.1 66146,66147 2a5yB 549 1.99e+01 1wl8A 189 1.99e+01 1vl2A 421 2.01e+01 c.26.2.1,d.210.1.1 108708,108709 1fmcA 255 2.02e+01 1cydA c.2.1.2 29856 1gkpA 458 2.02e+01 b.92.1.3,c.1.9.6 70231,70232 1f2tA 149 2.07e+01 1f2tA c.37.1.12 32373 1uh4A 637 2.10e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1o6zA 303 2.12e+01 c.2.1.5,d.162.1.1 81107,81108 1l2tA 235 2.15e+01 c.37.1.12 73514 1nksA 194 2.15e+01 1nksA c.37.1.1 31886 1ycoA 279 2.16e+01 1ax4A 467 2.17e+01 1ax4A c.67.1.2 34391 1bvyF 191 2.23e+01 1bvyF c.23.5.1 31207 1ji0A 240 2.26e+01 c.37.1.12 71665 1vjyA 303 2.29e+01 d.144.1.7 108633 1l1sA 113 2.31e+01 c.114.1.1 73484 1ltqA 301 2.36e+01 c.108.1.9,c.37.1.1 78208,78209 1e2uA 553 2.47e+01 1e1dA e.26.1.1 43362 1g6hA 257 2.47e+01 1gajA c.37.1.12 60318 1u0mA 382 2.50e+01 c.95.1.2,c.95.1.2 107557,107558 1i7pA 274 2.54e+01 b.43.4.2,c.25.1.1 66048,66049 1lw7A 365 2.55e+01 c.26.1.3,c.37.1.1 74295,74296 2aifA 135 2.56e+01 1krhA 338 2.57e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1mzhA 225 2.65e+01 c.1.10.1 79698 1wlsA 328 2.66e+01 1eg7A 557 2.68e+01 1eg7A c.37.1.10 32241 1v10A 521 2.69e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1gntA 553 2.70e+01 e.26.1.1 70290 1xtyA 120 2.74e+01 1v5wA 343 2.81e+01 c.37.1.11 108387 1ua4A 455 2.84e+01 c.72.1.3 99128 1x0rA 249 2.85e+01 1ek6A 348 2.86e+01 1xel c.2.1.2 29800 1z8fA 228 2.91e+01 2f46A 156 2.93e+01 1s4qA 228 2.93e+01 c.37.1.1 98507 1w36D 608 2.94e+01 1viaA 175 2.94e+01 c.37.1.2 100754 1py5A 326 2.94e+01 d.144.1.7 104389 1ki9A 192 3.00e+01 c.37.1.1 84404 1j8mF 297 3.00e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1xx1A 285 3.01e+01 2bnjA 303 3.07e+01 1z41A 338 3.08e+01 1ko7A 314 3.15e+01 c.98.2.1,c.91.1.2 72797,72798 1ji1A 637 3.16e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1qx4A 274 3.17e+01 b.43.4.2,c.25.1.1 104624,104625 1jjyA 636 3.17e+01 1jjyA 2fp3A 316 3.19e+01 1ayl 541 3.28e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1us8A 147 3.31e+01 c.37.1.12 99859 1qwgA 251 3.32e+01 c.1.27.1 96473 1j3bA 529 3.36e+01 c.91.1.1,c.109.1.1 77071,77072 3pmgA 561 3.41e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1oaoA 674 3.44e+01 e.26.1.2 86744 1xwiA 322 3.58e+01 1qhxA 178 3.69e+01 1qhsA c.37.1.3 31936 1m6kA 251 3.76e+01 e.3.1.1 78695 1iy8A 267 3.76e+01 c.2.1.2 83774 1tfr 305 3.77e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1kyqA 274 3.81e+01 c.2.1.11,e.37.1.1 73281,73282 1igwA 434 3.90e+01 c.1.12.7 62370 1sgwA 214 3.95e+01 c.37.1.12 105541 1su8A 636 3.96e+01 e.26.1.2 98999 1u8fO 335 4.06e+01 2ccjA 205 4.11e+01 1ajsA 412 4.11e+01 1ajsA c.67.1.1 34276 1f2tB 148 4.13e+01 1f2tB 1aq0A 306 4.13e+01 1aq0A c.1.8.3 28842 1sxjE 354 4.13e+01 a.80.1.1,c.37.1.20 106089,106090 2apoA 357 4.14e+01 1esc 306 4.17e+01 1esc c.23.10.1 31334 1umkA 275 4.22e+01 1ghpA 258 4.31e+01 1btl e.3.1.1 60520 1xszA 356 4.32e+01 1vixA 420 4.36e+01 c.56.5.4,d.58.19.1 100777,100778 1pzxA 289 4.39e+01 c.119.1.1 95484 1vecA 206 4.40e+01 c.37.1.19 100575 1kinA 366 4.41e+01 1vlmA 219 4.42e+01 c.66.1.41 108836 2d2eA 250 4.48e+01 1j9lA 247 4.50e+01 c.106.1.1 62762 1v9nA 360 4.52e+01 1zpdA 568 4.57e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1y4hA 188 4.64e+01 1xd8A 289 4.64e+01 1t8hA 277 4.64e+01 d.194.1.2 106664 1ixkA 315 4.73e+01 c.66.1.38 90716 1qy5A 269 4.76e+01 d.122.1.1 96573 1d6jA 211 4.78e+01 1d6jA c.37.1.4 31940 1ox6A 555 4.82e+01 c.1.2.1,c.23.16.1 87505,87506 2db3A 434 4.82e+01 3tmkA 216 4.97e+01 3tmkA c.37.1.1 31920 1z9tA 255 4.97e+01 1mvwA 840 5.01e+01 i.15.1.1 79523 1z7dA 433 5.02e+01 1wnfA 328 5.04e+01 1s1eA 224 5.04e+01 1o97C 264 5.06e+01 c.26.2.3 81232 1gp1A 198 5.06e+01 1gp1A c.47.1.10 33059 4tmkA 213 5.20e+01 5tmpA c.37.1.1 31930 1f6dA 376 5.22e+01 1f6dA c.87.1.3 35467 1pswA 348 5.35e+01 c.87.1.7 88287 1edg 380 5.42e+01 1edg c.1.8.3 28807 1ghsA 306 5.52e+01 1aq0A c.1.8.3 28840 1m7gA 211 5.52e+01 c.37.1.4 78724 1zd8A 227 5.62e+01 2cygA 312 5.64e+01 2gasA 307 5.67e+01 1mg4A 113 5.67e+01 d.15.11.1 84953 2bgkA 278 5.78e+01 1fnoA 417 5.79e+01 d.58.19.1,c.56.5.4 70145,75841 1bx1A 314 5.80e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1y63A 184 5.87e+01 1t6nA 220 5.89e+01 c.37.1.19 106576 2bngA 149 5.99e+01 1svdA 473 6.00e+01 1w5tA 412 6.02e+01 1jljA 189 6.13e+01 c.57.1.1 63169 1mxmA 254 6.16e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1qv9A 283 6.25e+01 c.127.1.1 96356 1pf4A 582 6.30e+01 c.37.1.12,f.37.1.1 88052,88053 1i1wA 303 6.31e+01 c.1.8.3 76732 1jvnA 555 6.31e+01 c.1.2.1,c.23.16.1 67355,67356 1u0jA 267 6.36e+01 c.37.1.20 107546 1o5zA 442 6.37e+01 c.59.1.2,c.72.2.2 92530,92531 1bg2 325 6.53e+01 1bg2 c.37.1.9 32189 1ihcA 188 6.61e+01 1di6A c.57.1.1 62379 1v8dA 235 6.63e+01 c.140.1.1 108425 1wojA 214 6.64e+01 1f06A 320 6.67e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1jjvA 206 6.69e+01 c.37.1.1 71698 1ayaA 101 6.70e+01 1qadA d.93.1.1 40460 1ry6A 360 6.74e+01 c.37.1.9 98090 1zkoA 136 6.77e+01 1rljA 139 6.82e+01 c.23.5.7 104983 1oe0A 230 6.92e+01 c.37.1.1 92788 1bt0A 76 7.01e+01 1ubi d.15.1.1 37607 1h5uA 842 7.07e+01 1a8i c.87.1.4 60655 1l2lA 457 7.07e+01 c.72.1.3 77656 1zm7A 230 7.11e+01 1xgkA 352 7.18e+01 2bl5A 140 7.19e+01 1gycA 499 7.22e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1zchA 255 7.25e+01 1tc6A 236 7.26e+01 d.122.1.1 106756 1yobA 179 7.27e+01 1xjcA 169 7.28e+01 1edt 271 7.33e+01 2ebn c.1.8.5 28993 1igs 248 7.37e+01 1a53 c.1.2.4 28565 1k28A 584 7.40e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 2aexA 346 7.42e+01 1gegA 256 7.42e+01 1ybvA c.2.1.2 29888 1gtvA 214 7.42e+01 c.37.1.1 70537 1nbfD 76 7.46e+01 d.15.1.1 80390 1k68A 140 7.47e+01 c.23.1.1 90943 1yrlA 491 7.48e+01 2bf6A 449 7.51e+01 1i4wA 353 7.57e+01 c.66.1.24 66028 1yw4A 341 7.59e+01 2gn4A 344 7.63e+01 2esnA 310 7.66e+01 1yj1A 76 7.71e+01 2aeuA 374 7.84e+01 2bp1A 360 7.89e+01 1rw1A 114 7.90e+01 1h9oA 112 7.99e+01 1qadA d.93.1.1 60837 1p5sA 203 7.99e+01 a.40.1.1 94147 1wl4A 397 8.00e+01 2c07A 285 8.02e+01 1u9iA 519 8.02e+01 1f61A 429 8.11e+01 1dquA c.1.12.7 29319 1jmkC 230 8.12e+01 c.69.1.22 71747 1qc5A 192 8.14e+01 1aoxA c.62.1.1 34147 1pmy 123 8.16e+01 1bqk b.6.1.1 22888 1x05A 129 8.16e+01 1ogwA 76 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