# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1ukvY 206 5.34e-22 c.37.1.8 107918 2bcgY 206 5.34e-22 1r2qA 170 1.58e-21 c.37.1.8 96874 1x3sA 195 1.99e-21 1huqA 164 2.05e-21 1byuA c.37.1.8 32020 2a5jA 191 4.40e-21 1ek0A 170 6.65e-21 1ctqA c.37.1.8 32076 2bmeA 186 6.71e-21 1mr3F 181 7.04e-21 c.37.1.8 79422 1z0jA 170 8.18e-21 2f9lA 199 1.00e-20 1r4aA 165 1.05e-20 c.37.1.8 96986 3rabA 169 1.10e-20 1ctqA c.37.1.8 32018 1oivA 191 1.11e-20 c.37.1.8 93076 2gf9A 189 1.33e-20 1yzqA 170 1.33e-20 1kshA 186 1.52e-20 c.37.1.8 72914 1fzqA 181 2.11e-20 1hurA c.37.1.8 32060 1hurA 180 2.58e-20 1hurA c.37.1.8 32052 1uptA 171 2.90e-20 c.37.1.8 99767 1oixA 191 3.19e-20 2a5dA 175 4.09e-20 1z06A 189 5.77e-20 1r8sA 164 5.97e-20 c.37.1.8 97247 1uptC 170 7.17e-20 c.37.1.8 99769 1o3yA 166 8.03e-20 c.37.1.8 86618 2g6bA 180 8.36e-20 1vg8A 207 8.40e-20 c.37.1.8 108606 1z08A 170 1.12e-19 1yzgA 179 1.25e-19 1s8fA 177 1.47e-19 c.37.1.8 105370 1wmsA 177 1.93e-19 c.37.1.8 109414 2b6hA 192 3.02e-19 1zj6A 187 5.92e-19 1zd9A 188 6.25e-19 1ky3A 182 8.24e-18 c.37.1.8 73193 1z2aA 168 1.22e-17 2a9kA 187 2.47e-17 1i2mA 216 2.70e-17 1byuA c.37.1.8 61568 1kao 167 3.72e-17 1ctqA c.37.1.8 32014 1u8zA 168 8.75e-17 2fn4A 181 3.57e-16 1ctqA 166 4.05e-16 1ctqA c.37.1.8 31965 1x1rA 178 8.89e-16 2eryA 172 1.22e-15 1xtqA 177 3.82e-15 1f6bA 198 3.95e-15 c.37.1.8 64986 1tx4B 178 4.69e-15 1ctqA c.37.1.8 32045 2erxA 172 4.83e-15 1kmqA 184 6.36e-15 c.37.1.8 84412 1mh1 186 3.61e-14 1eesA c.37.1.8 32002 2atvA 196 4.48e-14 2atxA 194 4.81e-14 2c2hA 192 9.13e-14 1nf3A 195 1.37e-13 c.37.1.8 85594 1m7bA 184 1.11e-12 c.37.1.8 74572 2gjsA 176 4.65e-12 2bmjA 178 1.57e-09 1lnzA 342 2.12e-07 b.117.1.1,c.37.1.8 78112,78113 1udxA 416 4.26e-07 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1mkyA 439 7.62e-07 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1wf3A 301 1.23e-06 2cxxA 190 1.48e-06 1svsA 353 1.75e-06 c.37.1.8 106051 1cipA 353 4.19e-06 1cipA a.66.1.1,c.37.1.8 18210,32093 1egaA 301 1.70e-05 1egaA c.37.1.8,d.52.3.1 32150,38836 1tadA 324 2.46e-05 1cipA a.66.1.1,c.37.1.8 18194,32077 1tag 324 3.06e-05 1cipA a.66.1.1,c.37.1.8 18197,32080 1nrjB 218 3.97e-05 c.37.1.8 86125 1sviA 195 4.17e-05 c.37.1.8 106048 1zcbA 362 1.30e-04 1kk1A 410 5.09e-04 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1dar 691 5.92e-04 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1g7sA 594 5.95e-04 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1puiA 210 2.24e-03 c.37.1.8 88292 1s0uA 408 2.42e-03 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1h65A 270 4.58e-03 c.37.1.8 65640 2c78A 405 1.42e-02 1ha3A 405 1.45e-02 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1exmA 405 1.51e-02 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1jnyA 435 1.80e-02 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ni3A 392 3.67e-02 c.37.1.8,d.15.10.2 80531,80532 1wdtA 665 4.67e-02 1ye8A 178 7.40e-02 1pujA 282 8.42e-02 c.37.1.8 88294 1lv7A 257 1.00e-01 c.37.1.20 78232 1htwA 158 1.15e-01 c.37.1.18 71083 1tq4A 413 1.49e-01 c.37.1.8 107201 1d2eA 397 2.02e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1n0uA 842 2.43e-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 1f60A 458 2.95e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2f1rA 171 3.31e-01 2akaB 299 3.36e-01 1l4uA 176 4.07e-01 c.37.1.2 73568 1x88A 359 4.10e-01 2b8wA 328 4.25e-01 1q0bA 367 5.06e-01 c.37.1.9 95502 1jalA 363 5.12e-01 c.37.1.8,d.15.10.2 84138,84139 1exbA 332 7.60e-01 1qrqA c.1.7.1 28666 1zsxA 347 7.99e-01 1f5nA 592 1.29e+00 1dg3A a.114.1.1,c.37.1.8 19077,32152 1nsf 273 1.35e+00 1d2nA c.37.1.20 32429 1jx2B 315 1.89e+00 c.37.1.8 67404 1t9hA 307 2.01e+00 1dbfA 127 2.04e+00 2chsA d.79.1.2 39761 1zu4A 320 2.05e+00 1d2nA 272 2.17e+00 1d2nA c.37.1.20 32428 1b0uA 262 2.18e+00 1b0uA c.37.1.12 32370 2bbsA 290 2.18e+00 2carA 196 2.48e+00 1in4A 334 2.64e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1n8nA 212 4.05e+00 c.108.1.12 91706 1i6iA 366 4.84e+00 1bg2 c.37.1.9 61844 1h8eA 510 4.97e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1hdoA 206 5.37e+00 1he2A c.2.1.2 60965 1xmiA 291 5.70e+00 1u09A 476 6.34e+00 e.8.1.4 107545 1xfiA 367 6.36e+00 e.50.1.1 109584 1z47A 355 6.73e+00 1un8A 552 6.77e+00 c.119.1.2,a.208.1.1 103806,99661 1e79A 510 6.86e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2fnaA 357 6.96e+00 1gky 187 7.00e+00 1gky c.37.1.1 31839 1vfvA 366 7.03e+00 c.37.1.9 108592 1ex7A 186 8.35e+00 1gky c.37.1.1 59537 1oxxK 353 8.42e+00 b.40.6.3,c.37.1.12 93715,93716 2cbzA 237 9.19e+00 1oxsC 353 9.29e+00 b.40.6.3,c.37.1.12 87519,87520 2b82A 211 9.34e+00 1rmwA 212 9.34e+00 1rj9A 304 1.03e+01 a.24.13.1,c.37.1.10 97553,97554 1z6gA 218 1.05e+01 4tmkA 213 1.07e+01 5tmpA c.37.1.1 31930 1xx6A 191 1.07e+01 1vplA 256 1.12e+01 1g291 372 1.13e+01 1g291 1e94F 449 1.14e+01 1do0A c.37.1.20 32443 2ck3A 510 1.17e+01 1h3qA 140 1.24e+01 d.110.4.3 76652 1bkb 136 1.26e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1xjcA 169 1.27e+01 1j5pA 253 1.38e+01 d.81.1.3,c.2.1.3 71577,83092 1u8fO 335 1.38e+01 1ub0A 258 1.42e+01 c.72.1.2 88394 1vmaA 306 1.44e+01 a.24.13.1,c.37.1.10 108887,108888 1in6A 334 1.49e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1g6oA 330 1.52e+01 1g6oA c.37.1.11 32430 1m7gA 211 1.55e+01 c.37.1.4 78724 1fts 295 1.58e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1tllA 688 1.60e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1v10A 521 1.62e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1jbkA 195 1.63e+01 c.37.1.20 71631 1x0rA 249 1.64e+01 2a5yB 549 1.72e+01 1ji0A 240 1.74e+01 c.37.1.12 71665 1f20A 435 1.83e+01 b.43.4.1,c.25.1.4 64932,64933 1py5A 326 1.87e+01 d.144.1.7 104389 1u9iA 519 1.91e+01 1bif 469 1.93e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1eg7A 557 1.95e+01 1eg7A c.37.1.10 32241 1tfr 305 2.01e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1gegA 256 2.06e+01 1ybvA c.2.1.2 29888 2ccjA 205 2.09e+01 2c3zA 222 2.14e+01 1nksA 194 2.14e+01 1nksA c.37.1.1 31886 1lw7A 365 2.27e+01 c.26.1.3,c.37.1.1 74295,74296 1bg2 325 2.29e+01 1bg2 c.37.1.9 32189 1rkbA 173 2.32e+01 1xizA 159 2.34e+01 1y8oA 419 2.45e+01 1gudA 288 2.53e+01 c.93.1.1 83326 1ltqA 301 2.57e+01 c.108.1.9,c.37.1.1 78208,78209 1yrbA 262 2.61e+01 2aexA 346 2.62e+01 1g6hA 257 2.63e+01 1gajA c.37.1.12 60318 1s6yA 450 2.65e+01 c.2.1.5,d.162.1.2 105314,105315 1nstA 325 2.65e+01 1nstA c.37.1.5 31951 1r31A 428 2.75e+01 d.58.20.1,d.179.1.1 96897,96898 1s4qA 228 2.77e+01 c.37.1.1 98507 2ez3A 302 2.87e+01 2aawA 222 2.93e+01 1r0wA 286 2.98e+01 c.37.1.12 96754 1us8A 147 3.07e+01 c.37.1.12 99859 1rpjA 288 3.11e+01 2dri c.93.1.1 35656 2freA 200 3.20e+01 2acvA 463 3.23e+01 1qhxA 178 3.25e+01 1qhsA c.37.1.3 31936 1gnlA 544 3.25e+01 e.26.1.1 70287 1f2tA 149 3.26e+01 1f2tA c.37.1.12 32373 2fp3A 316 3.34e+01 2gasA 307 3.36e+01 1lktA 104 3.37e+01 1lktA b.90.1.1 28398 1ii2A 524 3.37e+01 c.91.1.1,c.109.1.1 66146,66147 2fv7A 331 3.40e+01 1e9rA 437 3.41e+01 c.37.1.11 64827 1dd9A 338 3.41e+01 1dd9A e.13.1.1 43254 1j8mF 297 3.43e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1nijA 318 3.52e+01 c.37.1.10,d.237.1.1 85741,85742 1djxB 624 3.59e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1ko7A 314 3.60e+01 c.98.2.1,c.91.1.2 72797,72798 1esc 306 3.63e+01 1esc c.23.10.1 31334 2ax4A 198 3.64e+01 1pf4A 582 3.65e+01 c.37.1.12,f.37.1.1 88052,88053 2d2eA 250 3.73e+01 1iy8A 267 3.78e+01 c.2.1.2 83774 1i7pA 274 3.80e+01 b.43.4.2,c.25.1.1 66048,66049 1z8fA 228 3.81e+01 2aifA 135 3.83e+01 1e2uA 553 3.83e+01 1e1dA e.26.1.1 43362 1gntA 553 3.83e+01 e.26.1.1 70290 1bx1A 314 3.90e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1qx4A 274 3.93e+01 b.43.4.2,c.25.1.1 104624,104625 2c07A 285 4.01e+01 2f46A 156 4.06e+01 1kgdA 180 4.07e+01 c.37.1.1 68582 1z7dA 433 4.18e+01 1gkpA 458 4.24e+01 b.92.1.3,c.1.9.6 70231,70232 1gp1A 198 4.31e+01 1gp1A c.47.1.10 33059 1ly1A 181 4.32e+01 c.37.1.1 74334 1qycA 308 4.34e+01 c.2.1.2 96581 1djxA 624 4.38e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1fmcA 255 4.44e+01 1cydA c.2.1.2 29856 2db3A 434 4.48e+01 1nbfD 76 4.48e+01 d.15.1.1 80390 1xszA 356 4.49e+01 1a53 247 4.51e+01 1a53 c.1.2.4 28564 1oktA 211 4.54e+01 a.45.1.1,c.47.1.5 93272,93273 1vecA 206 4.63e+01 c.37.1.19 100575 1f06A 320 4.72e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 2cygA 312 4.76e+01 2bm8A 236 4.77e+01 1igs 248 4.89e+01 1a53 c.1.2.4 28565 1vz6A 393 4.92e+01 d.154.1.2 108949 1v5wA 343 4.99e+01 c.37.1.11 108387 2apoA 357 4.99e+01 1ayl 541 5.04e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1ogwA 76 5.14e+01 d.15.1.1 87001 1ubi 76 5.14e+01 1ubi d.15.1.1 37584 1dv1A 449 5.31e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1yqtA 538 5.44e+01 2bzlA 325 5.49e+01 2ew2A 316 5.52e+01 1hrhA 136 5.60e+01 1rthA c.55.3.1 33577 1guzA 310 5.65e+01 c.2.1.5,d.162.1.1 65586,65587 1iqrA 420 5.65e+01 a.99.1.1,c.28.1.1 66275,66276 1ghpA 258 5.70e+01 1btl e.3.1.1 60520 2bjvA 265 5.70e+01 1b4vA 504 5.84e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1ki9A 192 5.88e+01 c.37.1.1 84404 1yj1A 76 5.90e+01 1vjyA 303 5.90e+01 d.144.1.7 108633 1ynuA 473 6.00e+01 1ycoA 279 6.07e+01 1wdaA 670 6.15e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 2f8aA 208 6.18e+01 1smbA 154 6.30e+01 d.111.1.1 105756 1mxtA 504 6.35e+01 c.3.1.2,d.16.1.1 79671,79672 1n4wA 504 6.35e+01 c.3.1.2,d.16.1.1 91676,91677 1sdsA 117 6.35e+01 d.79.3.1 105439 1m7yA 435 6.43e+01 c.67.1.4 78761 1ek6A 348 6.50e+01 1xel c.2.1.2 29800 1h9oA 112 6.74e+01 1qadA d.93.1.1 60837 1wlsA 328 6.88e+01 2ddrA 306 6.95e+01 1lldA 319 6.96e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2esnA 310 7.02e+01 1qxoA 388 7.06e+01 d.258.1.1 96539 1rypJ 204 7.07e+01 d.153.1.4 41878 1xtyA 120 7.10e+01 1umkA 275 7.12e+01 1t8hA 277 7.13e+01 d.194.1.2 106664 1o69A 394 7.18e+01 c.67.1.4 92560 1sxjE 354 7.23e+01 a.80.1.1,c.37.1.20 106089,106090 1b8gA 429 7.26e+01 1b8gA c.67.1.4 34499 1z41A 338 7.36e+01 1yobA 179 7.43e+01 1vl2A 421 7.46e+01 c.26.2.1,d.210.1.1 108708,108709 2bx6A 350 7.52e+01 1x92A 199 7.53e+01 2b3oA 532 7.69e+01 1ihuA 589 7.76e+01 c.37.1.10,c.37.1.10 62394,62395 1v2dA 381 7.91e+01 c.67.1.1 108281 1x05A 129 7.93e+01 1gycA 499 7.98e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1efm 393 8.10e+01 1efcA c.37.1.8 64732 1qg8A 255 8.12e+01 1qg8A c.68.1.1 34505 1vlmA 219 8.13e+01 c.66.1.41 108836 1g55A 343 8.14e+01 1g55A c.66.1.26 34247 1mzhA 225 8.21e+01 c.1.10.1 79698 2bngA 149 8.25e+01 1bt0A 76 8.27e+01 1ubi d.15.1.1 37607 1yw4A 341 8.45e+01 1u2eA 289 8.46e+01 1ua4A 455 8.57e+01 c.72.1.3 99128 1ufkA 254 8.63e+01 c.66.1.39 99340 1j8yF 297 8.73e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1ewqA 765 8.77e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 2bnjA 303 8.85e+01 1krhA 338 8.89e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1jljA 189 8.90e+01 c.57.1.1 63169 1ihcA 188 8.90e+01 1di6A c.57.1.1 62379 1gvnB 287 8.98e+01 c.37.1.21 76354