# List of top-scoring protein chains for t2k-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 1zjjA 263 4.39e-31 1wviA 257 5.43e-30 1vjrA 271 6.82e-30 c.108.1.14 100832 2c4nA 250 3.22e-28 2gfhA 260 2.17e-24 1x42A 232 7.18e-21 2ah5A 210 3.64e-19 1jud 232 2.12e-16 1qq5A c.108.1.1 43325 2fdrA 229 2.65e-16 1zrn 232 3.96e-16 1qq5A c.108.1.1 43323 2go7A 207 1.35e-15 2b0cA 206 2.96e-15 1te2A 226 3.42e-15 c.108.1.6 106792 1o08A 221 3.45e-15 c.108.1.6 86525 1lvhA 221 7.70e-15 c.108.1.6 74282 1qq5A 253 1.51e-14 1qq5A c.108.1.1 43327 1qq7A 253 1.99e-14 1qq5A c.108.1.1 43329 1aq6A 253 2.34e-14 1qq5A c.108.1.1 43331 1vj5A 555 1.14e-13 c.108.1.2,c.69.1.11 100799,100800 1zd3A 555 1.22e-13 1rqlA 267 3.67e-13 c.108.1.3 97750 1qyiA 384 4.12e-13 c.108.1.13 96595 1cr6B 554 5.36e-13 1cr6B c.69.1.11,c.108.1.2 34688,43338 1fezA 256 1.07e-12 1fezA c.108.1.3 43343 1rdfA 267 1.24e-12 c.108.1.3 104884 2fi1A 190 1.41e-12 1swvA 267 2.36e-12 1cqzA 554 3.66e-12 1cr6B c.69.1.11,c.108.1.2 34689,43339 1ek1A 554 1.68e-11 1cr6B c.69.1.11,c.108.1.2 34685,43335 1f5sA 211 1.54e-09 1f5sA c.108.1.4 59656 1j97A 211 1.54e-09 1f5sA c.108.1.4 62753 1l7mA 211 1.57e-09 c.108.1.4 73664 1wr8A 231 1.14e-08 1u7pA 164 5.37e-07 2feaA 236 8.40e-06 1zs9A 261 1.01e-05 1nnlA 225 1.15e-05 c.108.1.4 85906 1ymqA 261 1.68e-05 1rkqA 282 1.75e-05 c.108.1.10 97621 1j8dA 180 3.80e-05 c.108.1.5 66433 1nf2A 268 3.95e-05 c.108.1.10 91849 1k1eA 180 4.54e-05 c.108.1.5 67995 1rlmB 271 7.37e-05 2b30A 301 7.75e-05 1rlmA 271 1.02e-04 1rloA 271 1.27e-04 1n8nA 212 3.27e-04 c.108.1.12 91706 2bdeA 470 3.60e-04 1nrwA 288 7.46e-04 c.108.1.10 86128 2b8eA 273 8.07e-04 2b82A 211 8.11e-04 1rmwA 212 8.17e-04 1xviA 275 1.95e-03 1wzcA 249 2.08e-02 1l6rA 227 2.47e-02 c.108.1.10 77768 1xpjA 126 2.82e-02 1vp8A 201 3.23e-02 1ltqA 301 3.51e-02 c.108.1.9,c.37.1.1 78208,78209 1rkuA 206 4.03e-02 c.108.1.11 97627 1wqaA 455 4.94e-02 1u02A 239 4.95e-02 c.108.1.15 107538 1s2oA 244 5.02e-02 1a9y 338 5.59e-02 1xel c.2.1.2 29789 2amyA 246 6.59e-02 1kvs 338 7.06e-02 1xel c.2.1.2 29799 1a9z 338 7.29e-02 1xel c.2.1.2 29795 1eulA 994 7.74e-02 1eulA 1udc 338 7.77e-02 1xel c.2.1.2 29785 1xel 338 8.40e-02 1xel c.2.1.2 29786 1udb 338 8.48e-02 1xel c.2.1.2 29787 1su4A 994 9.28e-02 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 2udpA 338 9.36e-02 1xel c.2.1.2 29791 1wpgA 994 1.27e-01 1xbtA 193 1.32e-01 1ek6A 348 1.35e-01 1xel c.2.1.2 29800 2anuA 255 1.40e-01 1hg3A 225 1.43e-01 1hg3A c.1.1.1 61025 1wv2A 265 1.72e-01 1r4vA 171 1.92e-01 a.197.1.1 97049 1i3kA 348 1.96e-01 1xel c.2.1.2 61595 2cvhA 220 1.96e-01 1pz1A 333 2.09e-01 c.1.7.1 95390 2akoA 251 2.28e-01 1q92A 197 2.32e-01 c.108.1.8 96250 1mh9A 197 2.34e-01 c.108.1.8 79118 1dv2A 452 2.78e-01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1rkd 309 2.86e-01 1rkd c.72.1.1 34928 1w4rA 195 2.94e-01 1o1zA 234 3.09e-01 c.1.18.3 86555 4xiaA 393 3.23e-01 4xis c.1.15.3 29439 1ma3A 253 3.40e-01 c.31.1.5 78883 1xm3A 264 3.79e-01 1gs5A 258 4.13e-01 c.73.1.2 70395 2d69A 430 4.21e-01 2cwxA 430 4.29e-01 1ynpA 317 4.33e-01 1mrp 309 4.62e-01 1mrp c.94.1.1 35796 1vcoA 550 4.64e-01 c.23.16.1,c.37.1.10 108508,108509 1xq6A 253 4.82e-01 1mtzA 293 5.84e-01 c.69.1.7 79467 1vpqA 273 5.89e-01 1ah4 315 5.98e-01 1frb c.1.7.1 28684 1ah0 316 6.39e-01 1frb c.1.7.1 28685 2fueA 262 6.57e-01 1uuqA 440 6.80e-01 c.1.8.3 100015 1dxy 333 7.28e-01 1dxy c.2.1.4,c.23.12.1 30094,31354 1k78A 149 7.43e-01 a.4.1.5,a.4.1.5 68255,68256 1frb 315 7.96e-01 1frb c.1.7.1 28665 1xqwA 293 8.01e-01 1nnfA 309 8.03e-01 c.94.1.1 85903 1vkfA 188 8.48e-01 c.1.29.1 108656 1nriA 306 8.52e-01 c.80.1.3 86123 1yc5A 246 9.12e-01 1el3A 316 9.38e-01 1frb c.1.7.1 28672 1us0A 316 9.54e-01 c.1.7.1 99850 1u2eA 289 9.59e-01 1az1 315 9.69e-01 1frb c.1.7.1 28677 1b7bA 310 9.77e-01 1b7bA c.73.1.1 34963 1jflA 228 1.01e+00 c.78.2.1,c.78.2.1 71656,71657 2acr 315 1.01e+00 1frb c.1.7.1 28674 2agtA 319 1.04e+00 1pwmA 316 1.08e+00 c.1.7.1 95231 1sauA 115 1.15e+00 2bb3A 221 1.16e+00 1tqjA 230 1.17e+00 c.1.2.2 107228 1ads 315 1.24e+00 1frb c.1.7.1 28671 1x8hA 228 1.24e+00 1itxA 419 1.28e+00 c.1.8.5,d.26.3.1 71425,71426 1vypX 364 1.29e+00 c.1.4.1 108905 6paxA 133 1.36e+00 6paxA a.4.1.5,a.4.1.5 64758,64759 1orrA 347 1.37e+00 c.2.1.2 93460 1ixkA 315 1.43e+00 c.66.1.38 90716 1l9vA 317 1.46e+00 d.13.2.1,d.216.1.1 73760,73761 2bogX 286 1.47e+00 1vl8A 267 1.55e+00 c.2.1.2 108733 1svq 114 1.55e+00 1svy d.109.1.1 40832 2b8tA 223 1.61e+00 1mgpA 313 1.63e+00 c.119.1.1 79098 1pdnC 128 1.64e+00 6paxA a.4.1.5 16047 2g8lA 299 1.70e+00 1mvoA 136 1.76e+00 c.23.1.1 79513 2a1fA 247 1.78e+00 1vzwA 244 1.79e+00 2fliA 220 1.81e+00 1j7lA 264 1.87e+00 d.144.1.6 62697 1onrA 316 1.89e+00 1onrA c.1.10.1 29169 1csjA 531 1.90e+00 1quvA e.8.1.4 43120 1z41A 338 1.91e+00 1tjyA 316 1.93e+00 c.93.1.1 107062 1nbaA 264 1.97e+00 1nbaA c.33.1.3 31753 1i2oA 316 1.99e+00 1onrA c.1.10.1 61574 1egaA 301 2.00e+00 1egaA c.37.1.8,d.52.3.1 32150,38836 1tuoA 464 2.08e+00 1gca 309 2.09e+00 1gca c.93.1.1 35659 1elyA 449 2.14e+00 1b8jA c.76.1.1 35028 1gtxA 472 2.14e+00 1gtxA 1svr 114 2.19e+00 1svy d.109.1.1 40833 1dbqA 289 2.20e+00 1qpzA c.93.1.1 35666 1xx6A 191 2.25e+00 1jk0B 345 2.25e+00 a.25.1.2 63143 2byjA 439 2.29e+00 1x8gA 227 2.31e+00 1ohvA 472 2.35e+00 c.67.1.4 93031 1xmrA 243 2.43e+00 1hzyA 332 2.44e+00 1pscA c.1.9.3 61468 1c2pA 576 2.47e+00 1quvA e.8.1.4 43117 1quvA 578 2.49e+00 1quvA e.8.1.4 43119 1y6vA 449 2.50e+00 1i0dA 332 2.50e+00 1pscA c.1.9.3 61487 2bkaA 242 2.51e+00 1wetA 340 2.53e+00 1qpzA a.35.1.5,c.93.1.1 17093,35670 1ub3A 220 2.53e+00 c.1.10.1 88395 1eywA 331 2.55e+00 1pscA c.1.9.3 29057 1s2wA 295 2.57e+00 c.1.12.7 98407 1y8aA 332 2.59e+00 1jk0A 419 2.62e+00 a.25.1.2 63142 1tml 286 2.63e+00 1tml c.6.1.1 30656 1pscA 365 2.63e+00 1pscA c.1.9.3 29058 2anhA 446 2.63e+00 1b8jA c.76.1.1 35004 1b0uA 262 2.71e+00 1b0uA c.37.1.12 32370 1moq 368 2.76e+00 1moq c.80.1.1 35302 1gx5A 536 2.77e+00 e.8.1.4 70682 1aliA 449 2.78e+00 1b8jA c.76.1.1 34996 1jftA 340 2.79e+00 a.35.1.5,c.93.1.1 66652,66653 1ed8A 449 2.80e+00 1b8jA c.76.1.1 34988 1alkA 449 2.81e+00 1b8jA c.76.1.1 34994 1k8cA 322 2.83e+00 c.1.7.1 72172 1pymA 295 2.84e+00 1pymA c.1.12.7 29308 2d2jA 329 2.87e+00 1qpzA 340 2.88e+00 1qpzA a.35.1.5,c.93.1.1 17097,35673 1qrrA 394 2.91e+00 1qrrA c.2.1.2 29824 1r3sA 367 2.92e+00 c.1.22.1 96963 2abbA 364 2.96e+00 1alhA 446 2.96e+00 1b8jA c.76.1.1 35016 1b8jA 449 2.97e+00 1b8jA c.76.1.1 34992 1h61A 364 2.97e+00 1oyc c.1.4.1 60657 1vpwA 340 2.99e+00 1qpzA a.35.1.5,c.93.1.1 17087,35680 1bncB 449 3.01e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28237,31644,41489 2oatA 439 3.02e+00 2dkb c.67.1.4 34452 1ewkA 490 3.06e+00 1ewkA c.93.1.1 35712 1rxwA 336 3.07e+00 a.60.7.1,c.120.1.2 98059,98060 1svy 114 3.11e+00 1svy d.109.1.1 40831 1hxhA 253 3.13e+00 c.2.1.2 76725 1anjA 446 3.15e+00 1b8jA c.76.1.1 35008 1lv7A 257 3.22e+00 c.37.1.20 78232 1w9pA 433 3.26e+00 1aniA 446 3.31e+00 1b8jA c.76.1.1 35018 2gbp 309 3.32e+00 1gca c.93.1.1 35657 1c7sA 858 3.35e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1edoA 244 3.36e+00 1ybvA c.2.1.2 29896 1ufaA 520 3.44e+00 a.8.3.3,c.6.2.4 99329,99330 1eokA 290 3.45e+00 1eokA c.1.8.5 28991 1xsjA 778 3.55e+00 1bncA 449 3.56e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488 2bneA 241 3.70e+00 1dv1A 449 3.84e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1qe3A 489 3.84e+00 2bce c.69.1.1 34630 1kh5A 449 3.88e+00 c.76.1.1 72475 2bnfB 241 3.97e+00 1vyrA 364 4.00e+00 c.1.4.1 108906 1qba 858 4.08e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 2bylA 439 4.09e+00 1vddA 228 4.09e+00 e.49.1.1 108519 1xkyA 301 4.15e+00 1e19A 314 4.16e+00 1b7bA c.73.1.1 34967 1pyfA 312 4.16e+00 c.1.7.1 95334 1i24A 404 4.25e+00 c.2.1.2 83663 3pmgA 561 4.29e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2bnh 457 4.30e+00 1a4yA c.10.1.1 30850 1gvoA 364 4.31e+00 c.1.4.1 76357 1yzbA 182 4.40e+00 1vcvA 226 4.43e+00 2bodX 286 4.46e+00 2ftwA 521 4.47e+00 2agaA 190 4.48e+00 1he2A 206 4.53e+00 1he2A c.2.1.2 60966 1oatA 439 4.54e+00 2dkb c.67.1.4 34461 1q44A 326 4.66e+00 c.37.1.5 95779 1sb8A 352 4.72e+00 c.2.1.2 105410 2f2hA 773 4.81e+00 1j4aA 333 4.84e+00 c.2.1.4,c.23.12.1 71502,71503 1eq2A 310 4.85e+00 1eq2A c.2.1.2 29814 1ic8A 194 4.88e+00 a.4.1.1,a.35.1.1 76740,76741 1etu 394 4.92e+00 1efcA c.37.1.8 64737 1iciA 256 4.95e+00 1iciA c.31.1.5 62266 1e7wA 291 5.10e+00 c.2.1.2 59373 1ebmA 317 5.25e+00 1ebmA a.96.1.3,d.129.1.2 18751,41300 1lwyA 324 5.26e+00 a.96.1.3,d.129.1.2 78285,78286 1afsA 323 5.30e+00 1frb c.1.7.1 28694 6gsvA 217 5.33e+00 1b8xA a.45.1.1,c.47.1.5 17633,32925 1h0xA 100 5.34e+00 d.68.6.1 76451 8acn 754 5.38e+00 1amj c.8.2.1,c.83.1.1 30724,35400 1k2yX 463 5.44e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1n3kA 130 5.45e+00 a.77.1.4 79965 2bkyA 97 5.48e+00 1ad4A 266 5.52e+00 1aj2 c.1.21.1 29670 1uroA 367 5.52e+00 1uroA c.1.22.1 29675 1umdB 324 5.54e+00 c.36.1.7,c.48.1.2 99600,99601 1amj 754 5.57e+00 1amj c.8.2.1,c.83.1.1 30725,35401 2bduA 297 5.60e+00 1o9gA 250 5.67e+00 c.66.1.29 86692 1j7iA 264 5.71e+00 1j7iA d.144.1.6 62694 3chy 128 5.75e+00 3chy c.23.1.1 31038 1rw7A 243 5.77e+00 c.23.16.2 97963 1yoeA 322 5.80e+00 1cye 129 5.82e+00 3chy c.23.1.1 31077 1u8fO 335 5.83e+00 1mi3A 322 5.93e+00 c.1.7.1 91274 1ebuA 358 5.96e+00 1ebuA c.2.1.3,d.81.1.2 30035,39950 1rsgA 516 5.98e+00 2be3A 226 6.07e+00 2cdnA 201 6.13e+00 1rpxA 230 6.15e+00 1rpxA c.1.2.2 28536 1w4tA 299 6.23e+00 1qhbA 596 6.26e+00 1qhbA a.111.1.2 19055 1lhpA 312 6.39e+00 c.72.1.5 77960 1jslA 327 6.43e+00 c.88.1.1 67233 2ez3A 302 6.44e+00 1jsrA 327 6.46e+00 c.88.1.1 67237 1qlwA 328 6.48e+00 1qlwA c.69.1.15 34722 4tmkA 213 6.49e+00 5tmpA c.37.1.1 31930 1b0jA 754 6.50e+00 1amj c.8.2.1,c.83.1.1 30719,35395 1h1yA 228 6.53e+00 c.1.2.2 76506 1ti6A 875 6.67e+00 b.52.2.2,c.81.1.1 106974,106975 1o7jA 327 6.70e+00 c.88.1.1 81140 1m3qA 317 6.80e+00 a.96.1.3,d.129.1.2 91184,91185 1mkyA 439 6.82e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1bf6A 291 6.84e+00 1pscA c.1.9.3 29065 1ajaA 449 6.85e+00 1b8jA c.76.1.1 35010 1v93A 296 6.87e+00 c.1.23.1 100532 1hdoA 206 7.23e+00 1he2A c.2.1.2 60965 7acn 754 7.29e+00 1amj c.8.2.1,c.83.1.1 30717,35393 1ebfA 358 7.33e+00 1ebuA c.2.1.3,d.81.1.2 30033,39948 1v8eA 224 7.44e+00 1vd6A 224 7.44e+00 1pjqA 457 7.48e+00 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2f7tA 227 7.61e+00 6acn 754 7.63e+00 1amj c.8.2.1,c.83.1.1 30721,35397 1s1pA 331 7.75e+00 c.1.7.1 98350 1mb4A 370 7.80e+00 c.2.1.3,d.81.1.1 78908,78909 1c7iA 489 7.81e+00 1thg c.69.1.1 34632 1e9rA 437 7.91e+00 c.37.1.11 64827 1tk9A 188 7.94e+00 c.80.1.3 107082 1jr3E 334 8.10e+00 a.80.1.1,c.37.1.20 63253,63254 1q3kA 259 8.13e+00 c.125.1.1 95693 1c96A 753 8.15e+00 1amj c.8.2.1,c.83.1.1 30727,35403 5tmpA 213 8.16e+00 5tmpA c.37.1.1 31931 1qydA 313 8.18e+00 c.2.1.2 96583 1qvzA 237 8.18e+00 c.23.16.2 96453 1zy9A 564 8.20e+00 1p5dX 463 8.22e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2awdA 323 8.32e+00 1lxtA 561 8.34e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35432,35433,35434,41309 1m2kA 249 8.43e+00 c.31.1.5 84754 1crwG 333 8.58e+00 1dssG c.2.1.3,d.81.1.1 30026,39941 1vkyA 347 8.58e+00 e.53.1.1 108696 1ua4A 455 8.68e+00 c.72.1.3 99128 1oe4A 247 8.70e+00 c.18.1.3 86895 1ojxA 263 8.78e+00 c.1.10.1 93164 2cw6A 298 8.85e+00 1avoB 140 8.87e+00 1avoB 1a1vA 476 9.01e+00 1heiA c.37.1.14,c.37.1.14 32467,32468 1c7jA 489 9.09e+00 2bce c.69.1.1 34631 1qgoA 264 9.10e+00 1qgoA c.92.1.2 35596 2tpsA 227 9.23e+00 2tpsA c.1.3.1 28591 2bleA 367 9.27e+00 2g09A 297 9.28e+00 1yf3A 259 9.34e+00 1phnA 162 9.39e+00 1cpcA a.1.1.3 15641 1pta 318 9.56e+00 1pscA c.1.9.3 29064 1ad1A 266 9.76e+00 1aj2 c.1.21.1 29668 1t7lA 766 9.79e+00 1m6dA 214 9.91e+00 d.3.1.1 84849 1yxyA 234 9.97e+00 2bznA 351 1.00e+01 1ualA 274 1.01e+01 c.116.1.4 88383 1zmtA 254 1.01e+01 1s5pA 235 1.02e+01 c.31.1.5 98569 3lynA 136 1.02e+01 1lis a.19.1.1 16413 1vjpA 394 1.02e+01 c.2.1.3,d.81.1.3 100828,100829 1ybdA 239 1.03e+01 1ylhA 560 1.03e+01 4pgaA 337 1.04e+01 4pgaA c.88.1.1 35565 2az4A 429 1.04e+01 1sfsA 240 1.04e+01 c.1.8.8 98846 1efcA 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