# 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 1korA 400 4.66e-37 c.26.2.1,d.210.1.1 72824,72825 1vl2A 421 2.48e-34 c.26.2.1,d.210.1.1 108708,108709 1wy5A 317 8.02e-25 1gpmA 525 1.49e-24 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ni5A 433 1.01e-22 c.26.2.5,d.229.1.1 80533,80534 1k92A 455 8.26e-20 c.26.2.1,d.210.1.1 68325,68326 1xngA 268 2.45e-14 1ih8A 271 2.31e-10 2nsyA c.26.2.1 62377 1kqpA 271 9.31e-10 c.26.2.1 72883 1ru8A 232 5.13e-09 c.26.2.1 97849 1wxiA 275 1.03e-08 2d13A 227 4.90e-08 1ct9A 553 2.55e-05 1ct9A c.26.2.1,d.153.1.1 31616,41834 1sur 215 3.41e-05 1sur c.26.2.2 31620 1m1zA 513 1.22e-04 c.26.2.1,d.153.1.1 78457,78458 1q15A 503 7.60e-04 c.26.2.1,d.153.1.1 95538,95539 1twdA 256 5.97e-03 c.1.30.1 107397 1jmvA 141 9.83e-03 c.26.2.4 66897 1vc4A 254 1.25e-02 c.1.2.4 100557 1dv1A 449 4.19e-02 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1zzmA 259 5.23e-02 2ng1 293 8.71e-02 1ng1 a.24.13.1,c.37.1.10 16962,32273 1n7kA 234 8.85e-02 c.1.10.1 85374 1ax4A 467 9.74e-02 1ax4A c.67.1.2 34391 2c3zA 222 1.32e-01 1suwA 249 1.73e-01 e.52.1.1 106027 1yx1A 264 2.28e-01 1z0sA 278 2.39e-01 1x1zA 252 3.16e-01 1km4A 247 3.22e-01 c.1.2.3 72740 1riqA 465 3.33e-01 a.203.1.1,d.104.1.1 97516,97517 2ew8A 249 3.43e-01 1vbkA 307 3.54e-01 1dvjA 246 3.58e-01 1dvjA c.1.2.3 28546 1ls1A 295 3.59e-01 a.24.13.1,c.37.1.10 78170,78171 1vh7A 265 4.01e-01 c.1.2.1 100646 2c71A 216 4.13e-01 1ekqA 272 4.22e-01 1c3qA c.72.1.2 34941 1xwyA 264 4.24e-01 1vhcA 224 4.36e-01 c.1.10.1 100661 1gy8A 397 4.76e-01 c.2.1.2 83376 2ct8A 497 4.92e-01 1cb0A 283 5.05e-01 1cb0A c.56.2.1 33790 1v8aA 265 5.59e-01 c.72.1.2 100494 1m5wA 243 5.67e-01 c.1.24.1 84836 1xeaA 323 5.83e-01 c.2.1.3,d.81.1.5 109572,109573 1r89A 437 5.95e-01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1lfpA 249 6.02e-01 e.39.1.1 73885 1rd5A 262 6.79e-01 1ii7A 333 7.00e-01 1ii7A d.159.1.4 62415 1wmbA 260 7.24e-01 1duvG 333 7.25e-01 1othA c.78.1.1,c.78.1.1 35228,35229 1vcoA 550 7.44e-01 c.23.16.1,c.37.1.10 108508,108509 1ipaA 274 7.63e-01 c.116.1.1,d.79.3.3 71254,71255 1nvmA 345 7.78e-01 a.5.7.1,c.1.10.5 86249,86250 1kwgA 645 7.84e-01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1efvB 255 7.95e-01 1efvB c.26.2.3 31634 1uayA 242 8.09e-01 c.2.1.2 88390 1thfD 253 8.14e-01 1thfD c.1.2.1 28535 1gegA 256 8.18e-01 1ybvA c.2.1.2 29888 1ro7A 259 9.34e-01 c.130.1.1 97667 1ynpA 317 9.65e-01 1wjgA 137 9.68e-01 1vp8A 201 9.87e-01 1woyA 500 9.99e-01 1gggA 226 1.01e+00 1lst c.94.1.1 35817 1igs 248 1.03e+00 1a53 c.1.2.4 28565 1wqaA 455 1.03e+00 1kjqA 391 1.06e+00 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1j24A 143 1.11e+00 c.52.1.20 84008 1gvfA 286 1.12e+00 c.1.10.2 70599 1ad4A 266 1.15e+00 1aj2 c.1.21.1 29670 1mdoA 393 1.20e+00 c.67.1.4 79013 4pfk 319 1.21e+00 3pfk c.89.1.1 35582 1a53 247 1.27e+00 1a53 c.1.2.4 28564 1nksA 194 1.27e+00 1nksA c.37.1.1 31886 1xu9A 286 1.30e+00 2tpsA 227 1.31e+00 2tpsA c.1.3.1 28591 1j0aA 325 1.36e+00 c.79.1.1 83871 1ps9A 671 1.37e+00 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1eyzA 392 1.38e+00 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1jflA 228 1.45e+00 c.78.2.1,c.78.2.1 71656,71657 1a8h 500 1.50e+00 1a8h a.27.1.1,c.26.1.1 16922,31589 1mzhA 225 1.51e+00 c.1.10.1 79698 2fuvA 549 1.63e+00 1b4kA 337 1.64e+00 1b4kA c.1.10.3 29184 1w5nA 337 1.65e+00 1ek6A 348 1.67e+00 1xel c.2.1.2 29800 2f8mA 244 1.73e+00 1g3qA 237 1.80e+00 1hyqA c.37.1.10 60237 1p1xA 260 1.82e+00 c.1.10.1 104060 1pii 452 1.87e+00 1pii c.1.2.4,c.1.2.4 28559,28563 1ux6A 350 1.89e+00 b.29.1.16,g.75.1.1 100145,100146 2pfkA 320 1.91e+00 3pfk c.89.1.1 35577 1vkfA 188 1.94e+00 c.1.29.1 108656 1gzgA 337 1.94e+00 c.1.10.3 70805 1jclA 260 1.99e+00 c.1.10.1 66501 1ho1A 242 1.99e+00 1ho1A c.1.24.1 61097 1pfkA 320 2.00e+00 3pfk c.89.1.1 35575 1j8yF 297 2.05e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 1t1gA 364 2.12e+00 c.41.1.2 106246 1yfsA 465 2.15e+00 1e19A 314 2.28e+00 1b7bA c.73.1.1 34967 1ad1A 266 2.31e+00 1aj2 c.1.21.1 29668 1w5qA 337 2.33e+00 1p5jA 372 2.38e+00 c.79.1.1 104067 2d1yA 256 2.40e+00 1xs5A 241 2.42e+00 1o5iA 249 2.45e+00 c.2.1.2 92499 1ve1A 304 2.48e+00 1dkuA 317 2.54e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wr8A 231 2.59e+00 1y8aA 332 2.59e+00 2a2pA 129 2.65e+00 1onrA 316 2.65e+00 1onrA c.1.10.1 29169 1ojxA 263 2.69e+00 c.1.10.1 93164 1sczA 233 2.71e+00 c.43.1.1 98802 1eny 268 2.72e+00 1eny c.2.1.2 29910 1nmoA 247 2.73e+00 c.135.1.1 91980 1i2oA 316 2.79e+00 1onrA c.1.10.1 61574 1pda 315 2.80e+00 1pda c.94.1.1,d.50.2.1 35751,38794 2apoA 357 2.83e+00 1iirA 415 2.90e+00 1iirA c.87.1.5 62453 1f2dA 341 2.95e+00 1f2dA c.79.1.1 35298 1xseA 295 3.02e+00 1w9yA 319 3.10e+00 2blnA 305 3.11e+00 1vl8A 267 3.24e+00 c.2.1.2 108733 2aawA 222 3.40e+00 1fh6A 282 3.51e+00 1fh6A 1vkmA 297 3.54e+00 c.138.1.1 108670 1yhfA 115 3.60e+00 1ozhA 566 3.64e+00 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 2tysA 268 3.65e+00 2tysA c.1.2.4 28572 1gs5A 258 3.66e+00 c.73.1.2 70395 1q7bA 244 3.72e+00 c.2.1.2 96026 1w6uA 302 3.96e+00 1qczA 169 3.97e+00 1qczA c.23.8.1 31276 1fyeA 229 4.00e+00 1fyeA c.23.16.4 31477 1gtkA 313 4.03e+00 c.94.1.1,d.50.2.1 76346,76347 1iugA 352 4.08e+00 c.67.1.3 90699 2czdA 208 4.21e+00 1d2eA 397 4.22e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1xhfA 123 4.27e+00 1tg7A 971 4.40e+00 1uc8A 280 4.46e+00 c.30.1.6,d.142.1.7 99165,99166 1byrA 155 4.50e+00 1byrA d.136.1.1 41450 1tzjA 338 4.54e+00 1s3eA 520 4.73e+00 c.3.1.2,d.16.1.5 98426,98427 1rpxA 230 4.82e+00 1rpxA c.1.2.2 28536 2aq8A 269 4.88e+00 1qopA 268 4.97e+00 2tysA c.1.2.4 28570 1ars 396 4.98e+00 1ajsA c.67.1.1 34287 2b3nA 159 5.04e+00 1z5yE 149 5.27e+00 1w8sA 263 5.31e+00 1bjwA 382 5.37e+00 1bjwA c.67.1.1 34349 1zd0A 150 5.57e+00 1ojaA 520 5.58e+00 c.3.1.2,d.16.1.5 93096,93097 1g0oA 283 5.61e+00 1ybvA c.2.1.2 60181 1zd3A 555 5.63e+00 1p4cA 380 5.67e+00 c.1.4.1 94100 1v4vA 376 5.70e+00 c.87.1.3 100313 1ewqA 765 5.79e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1byfA 125 5.92e+00 1byfA d.169.1.1 42419 2f46A 156 6.04e+00 2d83A 363 6.13e+00 1u2eA 289 6.31e+00 1lwjA 441 6.37e+00 b.71.1.1,c.1.8.1 74303,74304 1geqA 248 6.42e+00 2tysA c.1.2.4 28589 1wo8A 126 6.73e+00 1zzcA 198 6.95e+00 1vj5A 555 6.99e+00 c.108.1.2,c.69.1.11 100799,100800 1u0tA 307 7.00e+00 e.52.1.1 107567 1yo8A 634 7.04e+00 1qwgA 251 7.11e+00 c.1.27.1 96473 1gjwA 637 7.14e+00 b.71.1.1,c.1.8.1 60582,60583 1t2aA 375 7.18e+00 c.2.1.2 99078 1wyuB 474 7.36e+00 2gf9A 189 7.40e+00 1oktA 211 7.56e+00 a.45.1.1,c.47.1.5 93272,93273 1y5mA 276 7.75e+00 1mgpA 313 7.87e+00 c.119.1.1 79098 1z4vA 532 7.89e+00 1wosA 364 8.02e+00 b.44.2.1,d.250.1.1 109468,109469 1n4qB 377 8.06e+00 a.102.4.3 91636 1wdnA 226 8.24e+00 1lst c.94.1.1 35816 1hw6A 278 8.26e+00 1frb c.1.7.1 61296 2czcA 334 8.29e+00 2sqcA 631 8.40e+00 2sqcA a.102.4.2,a.102.4.2 18854,18855 1dofA 403 8.48e+00 1c3cA a.127.1.1 19429 1b9hA 388 8.48e+00 1b9hA c.67.1.4 34488 1z4xA 532 8.49e+00 1ass 159 8.66e+00 1a6dA c.8.5.2 30818 2c78A 405 8.70e+00 2aeeA 211 8.72e+00 1amy 403 8.98e+00 1jdc b.71.1.1,c.1.8.1 27799,28786 1w41A 101 9.14e+00 1umhA 184 9.15e+00 b.18.1.21 99605 1gqnA 252 9.31e+00 c.1.10.1 90514 1h7mA 102 9.54e+00 d.79.3.1 83485 1z6bA 154 9.54e+00 1dosA 358 9.70e+00 1dosA c.1.10.2 29175 1sdsA 117 9.70e+00 d.79.3.1 105439 1hv9A 456 9.72e+00 1fwyA b.81.1.4,c.68.1.5 28060,34518 1txkA 498 9.75e+00 b.1.18.2,b.30.5.9 107425,107426 2btvA 901 1.00e+01 2btvA e.28.1.1 43376 1meoA 209 1.02e+01 c.65.1.1 79035 1f6yA 262 1.02e+01 1f6yA c.1.21.2 29673 1j97A 211 1.03e+01 1f5sA c.108.1.4 62753 2cdnA 201 1.04e+01 1lh0A 213 1.04e+01 c.61.1.1 73896 1st9A 143 1.05e+01 c.47.1.10 98987 1h8lA 380 1.05e+01 b.3.2.1,c.56.5.1 65737,65738 1uumA 372 1.05e+01 c.1.4.1 100010 1s3cA 141 1.08e+01 2cxxA 190 1.08e+01 1jx7A 117 1.08e+01 c.114.1.1 77195 1kewA 361 1.09e+01 c.2.1.2 68544 1cs0A 1073 1.10e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1of5A 221 1.11e+01 d.17.4.2 86933 1y0eA 223 1.12e+01 1j9bA 141 1.12e+01 c.47.1.12 66459 1uehA 253 1.12e+01 c.101.1.1 99259 1r4yA 136 1.14e+01 d.1.1.3 97056 2ao0A 324 1.16e+01 1o4vA 183 1.20e+01 c.23.8.1 86628 1zh2A 121 1.22e+01 1t71A 281 1.22e+01 1pwhA 327 1.24e+01 c.79.1.1 95224 2f9sA 151 1.25e+01 1vzwA 244 1.26e+01 1rpnA 335 1.29e+01 c.2.1.2 97708 4xis 387 1.30e+01 4xis c.1.15.3 29421 5nul 138 1.30e+01 5nul c.23.5.1 31191 1x1tA 260 1.30e+01 1j0dA 341 1.31e+01 c.79.1.1 83902 1bdb 277 1.32e+01 1bdb c.2.1.2 29874 2cvjA 180 1.32e+01 1omhA 293 1.33e+01 d.89.1.5 93348 1z41A 338 1.33e+01 1vfsA 386 1.35e+01 b.49.2.2,c.1.6.1 108584,108585 1zxxA 319 1.36e+01 1uzmA 247 1.38e+01 1qwkA 317 1.38e+01 c.1.7.1 96482 2bnmA 198 1.40e+01 4tmkA 213 1.40e+01 5tmpA c.37.1.1 31930 2a8yA 270 1.41e+01 2gjlA 328 1.41e+01 1rh9A 373 1.42e+01 1tuoA 464 1.42e+01 1avaA 403 1.44e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 3xis 387 1.45e+01 4xis c.1.15.3 29423 1ha3A 405 1.45e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1augA 215 1.45e+01 1a2zA c.56.4.1 33798 1a4mA 349 1.45e+01 1a4mA c.1.9.1 29014 1wcwA 261 1.46e+01 1l0bA 229 1.47e+01 c.15.1.3,c.15.1.3 73391,73392 1io2A 213 1.47e+01 1ekeA c.55.3.1 62612 1z47A 355 1.49e+01 1wkyA 464 1.52e+01 1z08A 170 1.53e+01 1khtA 192 1.53e+01 c.37.1.1 84401 1zbxB 141 1.55e+01 1iq8A 582 1.59e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1r5jA 337 1.59e+01 c.77.1.5 97097 1nu0A 138 1.59e+01 c.55.3.8 92165 1to3A 304 1.62e+01 c.1.10.1 107161 1c8uA 285 1.66e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1dbtA 239 1.66e+01 1dbtA c.1.2.3 28539 1b74A 254 1.68e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1npyA 271 1.70e+01 c.2.1.7,c.58.1.5 85995,85996 1ahxA 396 1.71e+01 1ajsA c.67.1.1 34293 1fvuB 125 1.71e+01 1ixxB d.169.1.1 42346 1y4hA 188 1.73e+01 1xg5A 279 1.75e+01 1kfcA 268 1.75e+01 c.1.2.4 77371 2bd0A 244 1.77e+01 1mkaA 171 1.83e+01 1mkaA d.38.1.2 38543 1b93A 152 1.84e+01 1b93A c.24.1.2 31507 1j8mF 297 1.89e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1pzxA 289 1.89e+01 c.119.1.1 95484 1qisA 396 1.90e+01 1ajsA c.67.1.1 34284 1dqaA 467 1.90e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 7a3hA 303 1.91e+01 7a3hA c.1.8.3 28817 1eyeA 280 1.92e+01 1aj2 c.1.21.1 29672 1n2zA 245 1.92e+01 c.92.2.2 79865 2anuA 255 1.93e+01 1rds 105 1.94e+01 9rnt d.1.1.4 36236 2cc0A 195 1.94e+01 2coeA 120 1.95e+01 1fjgB 256 1.95e+01 1fjfB c.23.15.1 31400 1wd7A 261 1.97e+01 1exmA 405 1.98e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1y9qA 192 1.99e+01 1vmaA 306 1.99e+01 a.24.13.1,c.37.1.10 108887,108888 1r0kA 388 1.99e+01 a.69.3.1,c.2.1.3,d.81.1.3 104723,104724,104725 1z2aA 168 2.00e+01 7odcA 424 2.03e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2bvyA 475 2.04e+01 1ny1A 240 2.08e+01 c.6.2.3 86395 1gof 639 2.08e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1zwzA 126 2.09e+01 1a0cA 438 2.09e+01 1a0cA c.1.15.3 29529 1xmpA 170 2.13e+01 1sdjA 310 2.14e+01 d.21.1.2,d.21.1.2 98807,98808 1yadA 221 2.14e+01 1ub3A 220 2.16e+01 c.1.10.1 88395 1pytA 94 2.17e+01 1pytA d.58.3.1 39064 1k1xA 659 2.18e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2a3nA 355 2.23e+01 1srvA 145 2.24e+01 1derA c.8.5.1 30817 2ch4A 320 2.26e+01 8abp 306 2.28e+01 8abp c.93.1.1 35647 1mjhA 162 2.29e+01 1mjhA c.26.2.4 31639 1k7cA 233 2.29e+01 c.23.10.4 68267 1fds 327 2.30e+01 1fds c.2.1.2 29838 2g6bA 180 2.32e+01 1l7mA 211 2.34e+01 c.108.1.4 73664 1xbiA 120 2.36e+01 1wmjA 130 2.38e+01 1uluA 261 2.38e+01 1nofA 383 2.40e+01 b.71.1.2,c.1.8.3 92020,92021 1qw9A 502 2.40e+01 b.71.1.2,c.1.8.3 96466,96467 1k3iA 656 2.41e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1jtvA 327 2.41e+01 c.2.1.2 84230 1hskA 326 2.42e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1ciy 590 2.43e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1deoA 233 2.47e+01 1deoA c.23.10.4 31345 1pn2A 280 2.48e+01 d.38.1.4,d.38.1.4 94930,94931 1ve5A 311 2.49e+01 1l7bA 92 2.50e+01 c.15.1.2 91053 1wzaA 488 2.52e+01 1iy8A 267 2.54e+01 c.2.1.2 83774 1k1eA 180 2.56e+01 c.108.1.5 67995 1w18A 493 2.65e+01 1ebdC 41 2.66e+01 1ebdC a.9.1.1 16355 2f42A 179 2.70e+01 1gt91 357 2.71e+01 1qtwA 285 2.74e+01 1qumA c.1.15.1 29392 2aifA 135 2.74e+01 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