# 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 1gp1A 198 6.39e-31 1gp1A c.47.1.10 33059 2f8aA 208 6.79e-31 1st9A 143 2.91e-14 c.47.1.10 98987 2f9sA 151 3.91e-14 1jfuA 186 1.36e-13 c.47.1.10 62940 1xzoA 174 1.67e-10 1kngA 156 1.20e-08 c.47.1.10 72777 1z5yE 149 8.15e-08 1lu4A 136 2.84e-07 c.47.1.10 91124 2fy6A 143 3.01e-07 1ewxA 146 8.00e-07 1ewxA c.47.1.10 33062 1zzoA 136 8.72e-07 2cvbA 188 1.57e-06 1qk8A 146 1.65e-06 1ewxA c.47.1.10 33061 1o8xA 146 2.34e-06 c.47.1.10 86681 1o6jA 150 2.41e-06 c.47.1.10 81089 1qmvA 197 4.44e-06 1qq2A c.47.1.10 33066 1i5gA 144 4.99e-06 1ewxA c.47.1.10 61784 2b7kA 200 6.92e-06 1qq2A 199 9.61e-06 1qq2A c.47.1.10 33064 1zyeA 220 3.76e-05 1xvwA 160 4.69e-05 1nw2A 105 1.19e-04 c.47.1.1 92215 1t00A 112 1.78e-04 2trxA 108 1.87e-04 1thx c.47.1.1 32719 1nswA 105 2.39e-04 c.47.1.1 92097 1wmjA 130 3.72e-04 1aiu 105 3.86e-04 1erv c.47.1.1 32746 1kebA 108 4.10e-04 c.47.1.1 77341 1erv 105 6.04e-04 1erv c.47.1.1 32743 1thx 115 6.65e-04 1thx c.47.1.1 32732 1dbyA 107 1.08e-03 1thx c.47.1.1 32734 1fb6A 105 1.36e-03 1thx c.47.1.1 32739 1v98A 140 1.69e-03 1uvzA 119 2.09e-03 1w4vA 119 2.13e-03 1x0rA 249 3.56e-03 2f51A 118 3.73e-03 1tof 112 4.73e-03 1erv c.47.1.1 32733 1mdiA 105 5.70e-03 1erv c.47.1.1 32755 1r26A 125 7.38e-03 c.47.1.1 96847 1f9mA 112 2.34e-02 1erv c.47.1.1 32736 1faaA 124 3.06e-02 1erv c.47.1.1 32738 1erw 105 3.12e-02 1erv c.47.1.1 32745 1xvqA 175 4.29e-02 1uf5A 303 4.31e-02 d.160.1.2 107808 1erzA 303 4.34e-02 1erzA d.160.1.2 59498 1mek 120 5.17e-02 1erv c.47.1.2 32775 1eejA 216 6.09e-02 1eejA c.47.1.9,d.17.3.1 33057,38071 2a4vA 159 9.32e-02 1qxhA 167 1.22e-01 c.47.1.10 96528 1yvoA 172 2.12e-01 2bl1A 172 2.13e-01 1psqA 163 2.61e-01 c.47.1.10 88283 1xccA 220 2.65e-01 2axoA 270 2.94e-01 1uptA 171 3.82e-01 c.37.1.8 99767 1uptC 170 4.74e-01 c.37.1.8 99769 1q98A 165 5.64e-01 c.47.1.10 96253 1ionA 243 7.08e-01 c.37.1.10 62633 1r4aA 165 8.15e-01 c.37.1.8 96986 2his 312 8.16e-01 1taxA c.1.8.3 28918 1f1uA 323 8.81e-01 d.32.1.3,d.32.1.3 83200,83201 1bzyA 217 9.02e-01 1qk3A c.61.1.1 34071 1vflA 356 9.20e-01 1g3qA 237 9.34e-01 1hyqA c.37.1.10 60237 1ovqA 138 9.75e-01 c.55.3.8 93607 1kk1A 410 1.02e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2b5eA 504 1.04e+00 1w1iE 357 1.07e+00 c.1.9.1 109051 1e69B 322 1.07e+00 1e69B c.37.1.12 32377 1emsA 440 1.10e+00 1emsA d.13.1.1,d.160.1.1 37520,42086 2gd1O 334 1.14e+00 1dssG c.2.1.3,d.81.1.1 29978,39893 1t3bA 211 1.15e+00 c.47.1.9,d.17.3.1 106341,106342 1s0uA 408 1.20e+00 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1nu0A 138 1.24e+00 c.55.3.8 92165 2cybA 323 1.25e+00 1fkx 349 1.41e+00 1a4mA c.1.9.1 29018 1gd1O 334 1.45e+00 1dssG c.2.1.3,d.81.1.1 29962,39877 1add 349 1.49e+00 1a4mA c.1.9.1 29020 2a5dA 175 1.56e+00 1t5bA 201 1.60e+00 c.23.5.3 106433 1j08A 226 1.64e+00 c.47.1.2,c.47.1.2 83855,83856 1xhfA 123 1.65e+00 1a4mA 349 1.76e+00 1a4mA c.1.9.1 29014 1aba 87 1.81e+00 1aba c.47.1.1 32760 1a8l 226 1.97e+00 1a8l c.47.1.2,c.47.1.2 32777,32778 1fo5A 85 1.98e+00 1fo5A c.47.1.1 59922 1n8jA 186 2.06e+00 c.47.1.10 85401 2akrA 285 2.15e+00 1yzfA 195 2.32e+00 1uf3A 228 2.42e+00 d.159.1.6 99317 1dc7A 124 2.54e+00 1dbwA c.23.1.1 31093 1fhdA 312 2.72e+00 1taxA c.1.8.3 28915 1zx1A 231 2.76e+00 1g59A 468 2.81e+00 a.97.1.1,c.26.1.1 60257,60258 1tp9A 162 2.87e+00 1h10A 125 2.91e+00 b.55.1.1 83446 1unqA 125 2.91e+00 b.55.1.1 107968 1y9zA 441 3.07e+00 1v6cA 441 3.08e+00 1xi7A 61 3.10e+00 1szwA 379 3.11e+00 d.265.1.4 99047 1cd1A 315 3.16e+00 1cd1A b.1.1.2,d.19.1.1 21579,38155 1z5lA 285 3.43e+00 1si7A 369 3.49e+00 d.265.1.4 98883 2bx6A 350 3.86e+00 1fh9A 312 3.97e+00 1taxA c.1.8.3 28913 1sg0A 230 4.00e+00 1uc7A 125 4.08e+00 c.47.1.1 99163 8ohm 435 4.17e+00 1heiA c.37.1.14,c.37.1.14 32469,32470 2bzsA 236 4.48e+00 2dvh 79 4.72e+00 1c53 a.3.1.1 15803 1tv8A 340 4.79e+00 c.1.28.3 107352 1gln 468 4.84e+00 1gln a.97.1.1,c.26.1.1 18752,31588 1xg5A 279 5.12e+00 1s8nA 205 5.13e+00 c.23.1.1 105374 1qrdA 273 5.15e+00 1d4aA c.23.5.3 31217 1heiA 451 5.17e+00 1heiA c.37.1.14,c.37.1.14 32463,32464 1jfrA 262 5.21e+00 1jfrA c.69.1.16 34724 1z7gA 217 5.26e+00 1fi4A 416 5.40e+00 1fi4A d.14.1.5,d.58.26.2 59847,59848 1ea9C 583 5.65e+00 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1hrhA 136 5.70e+00 1rthA c.55.3.1 33577 1kjnA 157 5.85e+00 c.115.1.1 72614 1elqA 390 5.90e+00 1elqA c.67.1.3 34436 1hmpA 217 5.99e+00 1qk3A c.61.1.1 34075 1zj6A 187 6.22e+00 1aod 289 6.24e+00 2plc c.1.18.2 29615 1d4aA 273 6.30e+00 1d4aA c.23.5.3 31219 1o2dA 371 6.36e+00 e.22.1.2 86591 1bvoA 175 6.42e+00 1a3qA b.2.5.3 22457 2bbsA 290 6.47e+00 1kbqA 273 6.56e+00 c.23.5.3 68391 1lwjA 441 6.93e+00 b.71.1.1,c.1.8.1 74303,74304 1xm7A 195 6.94e+00 1dvh 79 7.10e+00 1c53 a.3.1.1 15802 2ga9A 297 7.15e+00 1t9xA 1049 7.15e+00 1afvH 220 7.58e+00 1mfa b.1.1.1,b.1.1.2 20131,21161 2bznA 351 7.62e+00 1gxuA 91 7.66e+00 d.58.10.1 76378 1qh8A 478 7.89e+00 1qguA c.92.2.3 35633 1pud 386 7.94e+00 1pud c.1.20.1 29658 2c1gA 431 7.99e+00 1qguA 478 8.01e+00 1qguA c.92.2.3 35625 2trcP 217 8.07e+00 1b9yC c.47.1.6 33051 1dbrA 231 8.07e+00 1qk3A c.61.1.1 34041 1j3gA 187 8.15e+00 d.118.1.1 77075 1oyeA 1049 8.16e+00 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1qbgA 272 8.35e+00 1d4aA c.23.5.3 31227 1spa 396 8.46e+00 1ajsA c.67.1.1 34291 1hh1A 143 8.53e+00 1gefA c.52.1.18 61036 1xgyH 219 8.55e+00 1l5zA 155 8.56e+00 c.23.1.1 77722 1qkkA 155 8.68e+00 1dbwA c.23.1.1 31104 1tikA 213 8.84e+00 c.23.5.3 107003 1z3eA 132 8.90e+00 1wvqA 167 8.97e+00 1arhA 396 9.16e+00 1ajsA c.67.1.1 34321 1u6tA 121 9.35e+00 1c0aA 585 9.45e+00 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2rslA 140 9.45e+00 2rslA c.53.1.1 33345 1b9xC 246 9.56e+00 1b9yC c.47.1.6 33053 1yobA 179 9.56e+00 1aazA 87 9.61e+00 1aba c.47.1.1 32761 1wryA 121 9.88e+00 1b9yC 246 9.89e+00 1b9yC c.47.1.6 33052 1kshA 186 1.00e+01 c.37.1.8 72914 1ufoA 238 1.00e+01 c.69.1.27 99344 1obfO 335 1.01e+01 c.2.1.3,d.81.1.1 86768,86769 1eluA 390 1.03e+01 1elqA c.67.1.3 34434 1xmiA 291 1.04e+01 1l7mA 211 1.04e+01 c.108.1.4 73664 1hniA 558 1.06e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 1pxgA 382 1.07e+01 c.1.20.1 95287 1a0rP 245 1.07e+01 1b9yC c.47.1.6 33054 1j09A 468 1.07e+01 a.97.1.1,c.26.1.1 77025,77026 1egaA 301 1.10e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1ymqA 261 1.11e+01 1f1xA 322 1.12e+01 d.32.1.3,d.32.1.3 83208,83209 1bqnA 558 1.13e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 2a5lA 200 1.14e+01 2f2lA 167 1.14e+01 1egr 85 1.14e+01 1kte c.47.1.1 32765 1aiaA 396 1.15e+01 1ajsA c.67.1.1 34306 1yioA 208 1.15e+01 1c53 79 1.15e+01 1c53 a.3.1.1 15801 2c6qA 351 1.16e+01 1f5sA 211 1.17e+01 1f5sA c.108.1.4 59656 1j97A 211 1.17e+01 1f5sA c.108.1.4 62753 1xpjA 126 1.18e+01 1fp4A 492 1.18e+01 c.92.2.3 76187 1jtkA 136 1.19e+01 c.97.1.1 71862 1xfxA 777 1.19e+01 1fsz 372 1.22e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1l1jA 239 1.22e+01 b.47.1.1 84516 1mdbA 539 1.24e+01 e.23.1.1 79008 1uwzA 136 1.25e+01 c.97.1.1 108081 1e4fT 419 1.25e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1ecsA 126 1.25e+01 1ecsA d.32.1.2 59407 1hslA 238 1.26e+01 1lst c.94.1.1 35804 2f62A 161 1.26e+01 1k4gA 386 1.26e+01 c.1.20.1 72054 1y2qA 143 1.27e+01 2minA 491 1.27e+01 1qguA c.92.2.3 35609 1jr3A 373 1.28e+01 a.80.1.1,c.37.1.20 63245,63246 1m2aA 110 1.30e+01 c.47.1.11 78472 2c1iA 431 1.34e+01 2fhzA 109 1.35e+01 2ez9A 603 1.35e+01 1bw0A 416 1.38e+01 1bw0A c.67.1.1 34385 1f37A 110 1.38e+01 1f37A c.47.1.11 33088 1r5yA 386 1.39e+01 c.1.20.1 97134 1a6tB 217 1.40e+01 1igtB b.1.1.1,b.1.1.2 20249,21259 1jr7A 311 1.41e+01 b.82.2.3 63255 1eluB 390 1.42e+01 1elqA c.67.1.3 34435 1f3eA 386 1.43e+01 1pud c.1.20.1 29661 2plc 274 1.48e+01 2plc c.1.18.2 29614 1zckA 154 1.49e+01 1vq0A 302 1.52e+01 1b5qA 472 1.52e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 2gshA 414 1.54e+01 1b8gA 429 1.58e+01 1b8gA c.67.1.4 34499 1m2bA 110 1.58e+01 c.47.1.11 78474 1ad9B 219 1.58e+01 1gc1H b.1.1.1,b.1.1.2 20215,21227 2fcjA 119 1.60e+01 1m2dA 110 1.60e+01 c.47.1.11 78476 1ap8 213 1.62e+01 1ap8 d.86.1.1 40151 1h1lA 481 1.64e+01 c.92.2.3 70851 1t1uA 639 1.67e+01 1jud 232 1.71e+01 1qq5A c.108.1.1 43325 1zh5A 195 1.71e+01 1vjnA 220 1.72e+01 d.157.1.4 100825 1gvoA 364 1.72e+01 c.1.4.1 76357 1gh6A 114 1.73e+01 a.2.3.1 65191 1ars 396 1.74e+01 1ajsA c.67.1.1 34287 1npk 154 1.74e+01 1npk d.58.6.1 39099 1tjyA 316 1.75e+01 c.93.1.1 107062 1pg5A 299 1.76e+01 c.78.1.1,c.78.1.1 104146,104147 1h61A 364 1.77e+01 1oyc c.1.4.1 60657 1m5wA 243 1.77e+01 c.1.24.1 84836 1nlfA 279 1.77e+01 c.37.1.11 85850 1r092 262 1.78e+01 1aym2 2ceyA 306 1.80e+01 1dttA 560 1.80e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 2fomB 185 1.81e+01 1rxdA 159 1.83e+01 1a1vA 476 1.86e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 1e5xA 486 1.88e+01 c.79.1.1 59283 1ahxA 396 1.89e+01 1ajsA c.67.1.1 34293 1vpqA 273 1.89e+01 2a0kA 161 1.90e+01 2f2tA 161 1.90e+01 1vetA 124 1.90e+01 d.110.7.1 108553 1ae6H 218 1.90e+01 1igtB b.1.1.1,b.1.1.2 20211,21223 1vyrA 364 1.91e+01 c.1.4.1 108906 1befA 181 1.91e+01 1befA b.47.1.3 26419 1qb7A 236 1.92e+01 1qb7A c.61.1.1 34087 1skoA 143 1.93e+01 d.110.7.1 105676 1rljA 139 1.94e+01 c.23.5.7 104983 1s3sG 127 1.96e+01 d.15.1.2 98457 1tc5A 194 1.96e+01 c.110.1.1 106752 1w77A 228 1.97e+01 1vd2A 89 1.97e+01 d.15.2.2 108517 2cz2A 223 1.97e+01 1fkoA 543 1.98e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 1zrn 232 1.98e+01 1qq5A c.108.1.1 43323 1um5H 217 2.02e+01 1kxoA 184 2.02e+01 b.60.1.1 84475 1m7yA 435 2.06e+01 c.67.1.4 78761 1poxA 585 2.07e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 1y81A 138 2.09e+01 1w3iA 293 2.09e+01 c.1.10.1 109152 1senA 164 2.12e+01 c.47.1.1 105465 1ho1A 242 2.13e+01 1ho1A c.1.24.1 61097 1rthA 560 2.13e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1df9A 191 2.14e+01 1befA b.47.1.3 26420 1ra0A 430 2.18e+01 1ecxA 384 2.18e+01 1ecxA c.67.1.3 34431 1g8yA 279 2.19e+01 1g8yA c.37.1.11 32302 1gdtA 183 2.19e+01 2rslA a.4.1.2,c.53.1.1 16021,33348 1k6wA 426 2.21e+01 b.92.1.2,c.1.9.5 68236,68237 1xo1A 291 2.31e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1fsfA 266 2.33e+01 c.124.1.1 65047 1l6rA 227 2.34e+01 c.108.1.10 77768 1h9sA 140 2.34e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 2abbA 364 2.35e+01 1q25A 432 2.46e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1ndk 155 2.46e+01 1npk d.58.6.1 39118 1e5dA 402 2.48e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1j05B 121 2.49e+01 b.1.1.1 90736 1f3fA 155 2.49e+01 1npk d.58.6.1 39101 2aeuA 374 2.49e+01 1cr6B 554 2.52e+01 1cr6B c.69.1.11,c.108.1.2 34688,43338 1ebaA 215 2.56e+01 1eerB b.1.2.1,b.1.2.1 22015,22016 1fw9A 164 2.58e+01 1fw9A d.190.1.1 60059 1tt8A 164 2.58e+01 1k8tA 510 2.59e+01 e.41.1.1 68316 1eetA 557 2.65e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 1iz0A 302 2.66e+01 b.35.1.2,c.2.1.1 83821,83822 1nfkA 325 2.69e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1ei1A 391 2.70e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1f89A 291 2.70e+01 d.160.1.1 64988 1xfuA 747 2.76e+01 1vs0A 310 2.78e+01 1cjbA 231 2.81e+01 1qk3A c.61.1.1 34079 2b18A 164 2.84e+01 1f2vA 219 2.88e+01 1f2vA c.23.17.1 59627 2gaeA 346 2.89e+01 1xdnA 277 2.91e+01 1pea 385 2.91e+01 1pea c.93.1.1 35662 1ynuA 473 2.92e+01 1vl8A 267 2.93e+01 c.2.1.2 108733 1wehA 171 2.93e+01 2givA 295 2.94e+01 1hztA 190 2.94e+01 1i9aA d.113.1.2 61459 1jvnA 555 2.95e+01 c.1.2.1,c.23.16.1 67355,67356 1t7lA 766 2.96e+01 1tgoA 773 2.99e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 1eokA 290 3.00e+01 1eokA c.1.8.5 28991 1dvfD 120 3.04e+01 1mfa b.1.1.1 20107 2b4rO 345 3.05e+01 1jx7A 117 3.05e+01 c.114.1.1 77195 1oboA 169 3.05e+01 c.23.5.1 86776 2gasA 307 3.09e+01 2bkkA 264 3.11e+01 1cf2O 337 3.14e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1mkyA 439 3.15e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2bwnA 401 3.15e+01 1ohvA 472 3.16e+01 c.67.1.4 93031 1vypX 364 3.17e+01 c.1.4.1 108905 1vhxA 150 3.21e+01 c.55.3.8 100712 1qk4A 233 3.24e+01 1qk3A c.61.1.1 34037 1u7pA 164 3.25e+01 1wsrA 375 3.28e+01 1ox6A 555 3.28e+01 c.1.2.1,c.23.16.1 87505,87506 1eg5A 384 3.30e+01 1ecxA c.67.1.3 34429 1q0xH 221 3.31e+01 b.1.1.1,b.1.1.2 95517,95518 2aqwA 332 3.31e+01 1dar 691 3.31e+01 1dar 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