# 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 2aexA 346 4.41e-01 1oyc 400 1.05e+00 1oyc c.1.4.1 28603 1y96B 85 1.27e+00 2c5kT 95 1.52e+00 1wdpA 495 1.82e+00 1q6cA 495 1.83e+00 c.1.8.1 95970 1t3wA 148 1.88e+00 1v3hA 495 1.91e+00 c.1.8.1 108303 1byb 495 1.93e+00 1byb c.1.8.1 28790 2amyA 246 2.03e+00 1hwtC 81 2.08e+00 1hwtC g.38.1.1,h.1.3.1 45085,45518 1bbhA 131 2.66e+00 1bbhA a.24.3.2 16546 1lj9A 144 2.94e+00 a.4.5.28 78035 1jixA 351 2.99e+00 1c3jA c.87.1.1 63081 1ynfA 458 3.15e+00 1c3jA 351 3.20e+00 1c3jA c.87.1.1 35459 1vgoA 253 3.21e+00 2h0uA 217 3.30e+00 2fbhA 146 3.41e+00 2b1eA 564 3.65e+00 1q74A 303 3.99e+00 c.134.1.1 96019 1yirA 408 4.51e+00 1eca 136 4.89e+00 1flp a.1.1.2 15209 1tw9A 206 5.35e+00 a.45.1.1,c.47.1.5 107381,107382 1f46A 140 5.85e+00 1f46A d.129.4.1 59643 2au5A 139 5.87e+00 1h6pA 203 6.17e+00 a.146.1.1 60690 1txnA 328 6.19e+00 2agaA 190 6.56e+00 1wdtA 665 7.13e+00 1t95A 240 7.20e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2beqD 48 7.28e+00 1ir6A 424 8.32e+00 c.107.1.2 71342 1wkyA 464 8.57e+00 1eejA 216 8.82e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1wy1A 172 8.94e+00 1wmhA 89 9.20e+00 1n4kA 381 9.33e+00 a.118.22.1,b.42.6.1 79992,79993 1xhdA 173 9.41e+00 2a6sA 84 9.60e+00 2etxA 209 9.90e+00 2amdA 311 1.01e+01 1foeA 377 1.04e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 2adoA 196 1.04e+01 1p9qC 256 1.05e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1omrA 201 1.05e+01 a.39.1.5 93349 1jsxA 207 1.06e+01 c.66.1.20 71846 2chgA 226 1.07e+01 1y9qA 192 1.09e+01 1y7qA 98 1.16e+01 1ym3A 215 1.18e+01 2a5vA 213 1.19e+01 1ojxA 263 1.20e+01 c.1.10.1 93164 1a8h 500 1.27e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1ut8A 291 1.29e+01 a.60.7.1,c.120.1.2 99908,99909 1iscA 192 1.29e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1yzbA 182 1.31e+01 2fsjA 346 1.39e+01 1b0nA 111 1.39e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1jo0A 98 1.40e+01 d.68.4.1 77140 1a7w 69 1.42e+01 1a7w a.22.1.2 16477 1b0b 142 1.44e+01 2fal a.1.1.2 15010 2fueA 262 1.45e+01 2a0kA 161 1.45e+01 2f2tA 161 1.45e+01 1j93A 353 1.47e+01 c.1.22.1 66454 1ofcX 304 1.49e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1m1eB 81 1.49e+01 a.161.1.1 78400 1ockA 412 1.49e+01 c.117.1.1 86802 2f62A 161 1.49e+01 1y1xA 191 1.51e+01 1tikA 213 1.53e+01 c.23.5.3 107003 1avsA 90 1.57e+01 1cll a.39.1.5 17226 1r0mA 375 1.58e+01 c.1.11.2,d.54.1.1 104747,104748 1v1dA 31 1.65e+01 2a5kA 307 1.67e+01 1q2wA 308 1.68e+01 b.47.1.4 88355 2f6mA 65 1.73e+01 2b5aA 77 1.73e+01 1cpq 129 1.79e+01 1cpq a.24.3.2 16556 1rec 201 1.87e+01 1rec a.39.1.5 17326 1grj 158 1.88e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1vd2A 89 1.88e+01 d.15.2.2 108517 2fu2A 102 1.90e+01 1pvmA 184 1.91e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1hulA 108 1.91e+01 1hulA a.26.1.2 16865 2ffuA 501 1.95e+01 2erbA 125 1.98e+01 1vjeA 166 1.99e+01 d.185.1.2 100807 1innA 166 1.99e+01 1j98A d.185.1.2 62608 2cvhA 220 1.99e+01 1y791 680 2.01e+01 1sczA 233 2.02e+01 c.43.1.1 98802 1g0cA 364 2.04e+01 7a3hA c.1.8.3 60165 2ajrA 331 2.06e+01 1wmaA 276 2.07e+01 3ertA 261 2.07e+01 3erdA a.123.1.1 19292 1zgmA 248 2.14e+01 2fnoA 248 2.14e+01 2ax8A 256 2.16e+01 1r2rA 248 2.17e+01 c.1.1.1 96875 2bvyA 475 2.21e+01 1cvrA 435 2.22e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1tr0A 108 2.23e+01 d.58.4.4 107261 2ax9A 256 2.23e+01 1xpcA 248 2.29e+01 1miwA 404 2.31e+01 a.173.1.1,d.218.1.4 79162,79163 1dugA 234 2.33e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1q0sA 259 2.38e+01 c.66.1.28 95509 1ovnA 248 2.38e+01 a.71.1.1,c.47.1.7 93602,93603 1top 162 2.45e+01 1ncx a.39.1.5 17223 1upvA 257 2.52e+01 1ajsA 412 2.55e+01 1ajsA c.67.1.1 34276 1ap6A 198 2.57e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1tn4 159 2.58e+01 1ncx a.39.1.5 17248 1uw4A 91 2.62e+01 d.58.7.4 100071 2fefA 294 2.62e+01 1zl8A 53 2.63e+01 2cfxA 144 2.64e+01 1cc5 83 2.67e+01 1cc5 a.3.1.1 15901 2basA 431 2.69e+01 2af4C 333 2.71e+01 1h5rA 293 2.74e+01 c.68.1.6 65623 1auoA 218 2.76e+01 1auoA c.69.1.14 34716 1t5bA 201 2.76e+01 c.23.5.3 106433 1z7dA 433 2.81e+01 1lqtA 456 2.82e+01 c.3.1.1,c.4.1.1 74198,74199 1v3wA 173 2.84e+01 b.81.1.5 100291 1paqA 189 2.89e+01 a.118.1.14 94413 1sauA 115 2.89e+01 1azo 232 2.91e+01 1azo c.52.1.14 33329 1h8eA 510 2.92e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1lvfA 110 3.07e+01 a.47.2.1 74280 1zq7A 207 3.13e+01 1xd8A 289 3.18e+01 1kv5A 250 3.25e+01 c.1.1.1 73052 1mvwC 147 3.34e+01 i.15.1.1 79525 1nvmA 345 3.35e+01 a.5.7.1,c.1.10.5 86249,86250 1i37A 260 3.41e+01 1a28A a.123.1.1 61583 2aukA 190 3.44e+01 2bskB 90 3.46e+01 1tpfA 250 3.48e+01 1amk c.1.1.1 28467 1w1iE 357 3.48e+01 c.1.9.1 109051 1woyA 500 3.48e+01 1e79A 510 3.49e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2gwgA 350 3.54e+01 1cmcA 104 3.55e+01 1cmbA a.43.1.5 17462 1wekA 217 3.58e+01 1a4mA 349 3.59e+01 1a4mA c.1.9.1 29014 1n3lA 372 3.60e+01 c.26.1.1 79966 2cxxA 190 3.65e+01 1dp3A 55 3.66e+01 1dp3A a.55.1.2 59128 1izmA 184 3.66e+01 a.199.1.1 90725 1r2zA 274 3.70e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1k2xB 143 3.73e+01 1zuhA 168 3.74e+01 1iznB 277 3.74e+01 e.43.1.2 83848 1ufmA 84 3.78e+01 a.4.5.47 107816 2cybA 323 3.85e+01 1czqA 46 3.86e+01 1czqA h.3.2.1 45720 1cojA 212 3.90e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1b67A 68 3.92e+01 1a7w a.22.1.2 16474 1uok 558 3.93e+01 1uok b.71.1.1,c.1.8.1 27801,28788 2ck3A 510 4.03e+01 1keaA 221 4.08e+01 a.96.1.2 68491 1tfjA 219 4.09e+01 1y7yA 74 4.12e+01 1pq9A 253 4.12e+01 a.123.1.1 95004 1zjcA 418 4.15e+01 1p5zB 263 4.15e+01 c.37.1.1 87815 2fcwA 109 4.16e+01 2apjA 260 4.18e+01 1vflA 356 4.19e+01 2gl5A 410 4.27e+01 1edg 380 4.29e+01 1edg c.1.8.3 28807 1v2zA 111 4.30e+01 a.186.1.1 108300 1xfuA 747 4.33e+01 1fw1A 216 4.37e+01 a.45.1.1,c.47.1.5 60051,60052 1z5lA 285 4.41e+01 1wmiB 67 4.45e+01 1fexA 59 4.50e+01 a.4.1.3 59803 1ltsC 41 4.51e+01 1ltsC 1rkbA 173 4.52e+01 1to6A 371 4.53e+01 c.141.1.1 107170 1syyA 346 4.54e+01 a.25.1.2 106126 1q45A 391 4.56e+01 c.1.4.1 95780 1n9dA 199 4.56e+01 a.26.1.1 85464 1lghB 45 4.57e+01 1lghB f.3.1.1 43734 1qz4A 213 4.58e+01 a.198.1.1 96613 1yf3A 259 4.61e+01 1qazA 351 4.64e+01 1qazA a.102.3.1 18848 1dekA 241 4.65e+01 1dekA c.37.1.1 31842 1tph1 247 4.66e+01 1amk 2ezvA 269 4.68e+01 1jk0B 345 4.68e+01 a.25.1.2 63143 1cmbA 104 4.69e+01 1cmbA a.43.1.5 17460 1xk5A 204 4.70e+01 1spvA 184 4.71e+01 c.50.1.2 98957 1wbeA 209 4.72e+01 1sjdA 368 4.75e+01 c.1.11.2,d.54.1.1 105632,105633 2akrA 285 4.81e+01 1p65A 73 4.83e+01 d.254.1.1 94156 1pkhA 204 4.90e+01 b.85.4.1 94832 1puoA 170 4.91e+01 a.101.1.1,a.101.1.1 95134,95135 2ar0A 541 4.97e+01 2abbA 364 4.98e+01 1xfxA 777 5.01e+01 1vypX 364 5.05e+01 c.1.4.1 108905 2gb7A 305 5.05e+01 3tmkA 216 5.07e+01 3tmkA c.37.1.1 31920 1eijA 80 5.15e+01 1eijA a.5.6.1 16298 1im5A 180 5.20e+01 c.33.1.3 66211 1wi9A 72 5.21e+01 1ofdA 1520 5.22e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1vyrA 364 5.23e+01 c.1.4.1 108906 1lm4A 194 5.39e+01 d.167.1.1 84626 2c4jA 218 5.48e+01 1q5dA 419 5.50e+01 a.104.1.1 95891 1bj7 156 5.50e+01 1bj7 b.60.1.1 27113 1sdiA 213 5.53e+01 a.198.1.1 105437 1f0jA 377 5.53e+01 1f0jA a.211.1.2 19346 2gdzA 267 5.55e+01 2gokA 429 5.58e+01 1i4dA 224 5.61e+01 h.4.7.1 61682 2f2eA 146 5.69e+01 1woqA 267 5.72e+01 c.55.1.10,c.55.1.10 109462,109463 1yozA 116 5.72e+01 1ak0 270 5.76e+01 1ak0 a.124.1.2 19345 1m0uA 249 5.80e+01 a.45.1.1,c.47.1.5 78359,78360 1y97A 238 5.83e+01 1qjtA 99 5.84e+01 1eh2 a.39.1.6 17335 1e5pA 151 5.86e+01 1bj7 b.60.1.1 59272 1y8qA 346 5.89e+01 3xis 387 5.96e+01 4xis c.1.15.3 29423 1w8sA 263 6.01e+01 1l7yA 94 6.01e+01 d.15.1.6 73676 2ap3A 199 6.05e+01 1xorA 349 6.05e+01 1tbbA 332 6.06e+01 a.211.1.2 106741 1xw5A 217 6.11e+01 1ih8A 271 6.13e+01 2nsyA c.26.2.1 62377 1kqpA 271 6.13e+01 c.26.2.1 72883 2a4vA 159 6.20e+01 1z0xA 220 6.28e+01 1z90A 469 6.32e+01 1wc3A 219 6.42e+01 2bezF 42 6.48e+01 1b0nB 57 6.49e+01 1b0nB a.34.1.1 17002 1aj8A 371 6.51e+01 1aj8A a.103.1.1 18900 2f9dA 125 6.52e+01 1ew6A 137 6.60e+01 1ewaA a.1.1.2 15637 2f46A 156 6.62e+01 2db0A 253 6.63e+01 1xeuA 263 6.65e+01 2bkaA 242 6.67e+01 1b5tA 275 6.67e+01 1b5tA c.1.23.1 29676 1whzA 70 6.68e+01 1zckA 154 6.68e+01 1gmlA 178 6.68e+01 c.8.5.2 70273 1ji6A 589 6.72e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1k8tA 510 6.74e+01 e.41.1.1 68316 1vbuA 328 6.79e+01 1ddmA 135 6.81e+01 2nmbA b.55.1.2 26993 1amk 251 6.87e+01 1amk c.1.1.1 28503 1v77A 212 6.90e+01 c.6.3.2 108402 1ezvB 352 6.92e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 2eulA 156 6.94e+01 1rxdA 159 6.94e+01 1btkA 169 7.02e+01 1btkA b.55.1.1 26959 1y2kA 349 7.05e+01 1ow4A 129 7.06e+01 a.39.2.1 93628 1usuA 260 7.06e+01 d.14.1.8 99885 1y6hA 177 7.06e+01 1gjnA 153 7.07e+01 a.1.1.2 70191 1ek9A 428 7.07e+01 1ek9A f.5.1.1 43809 1nh1A 330 7.08e+01 e.45.1.1 91871 1ii7A 333 7.09e+01 1ii7A d.159.1.4 62415 1l1zA 274 7.12e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 2b18A 164 7.14e+01 1c1dA 355 7.16e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 2f5tX 233 7.17e+01 1tzzA 392 7.18e+01 1dd3C 32 7.18e+01 1dd3C a.108.1.1 19033 1nzeA 149 7.25e+01 a.24.18.1 92374 1icpA 376 7.26e+01 1oyc c.1.4.1 62270 1ka1A 357 7.28e+01 e.7.1.1 68369 1qgxA 357 7.30e+01 1qgxA e.7.1.1 42973 2frfA 153 7.30e+01 1or4A 178 7.38e+01 a.1.1.2 93447 1qbgA 272 7.39e+01 1d4aA c.23.5.3 31227 2gboA 104 7.40e+01 2b8wA 328 7.49e+01 1yzmA 51 7.52e+01 2fikA 287 7.53e+01 1p5jA 372 7.60e+01 c.79.1.1 104067 1j9lA 247 7.61e+01 c.106.1.1 62762 2mgg 154 7.61e+01 1a6m a.1.1.2 15069 1dwtA 153 7.67e+01 1a6m a.1.1.2 15190 1zljA 78 7.70e+01 1zbsA 291 7.74e+01 1zwwA 256 7.82e+01 1xteA 154 7.85e+01 1vjuA 309 7.88e+01 d.248.1.1 100835 1fr2A 86 7.89e+01 a.28.2.1 83256 1nkpA 88 7.90e+01 a.38.1.1 80573 1acf 125 7.99e+01 3nul d.110.1.1 40882 1k3bB 164 8.00e+01 d.3.1.1 72015 1l0wA 580 8.05e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1k1vA 41 8.07e+01 a.37.1.1 71999 1k5nA 276 8.17e+01 b.1.1.2,d.19.1.1 77266,77267 2gv5C 73 8.17e+01 1zroA 602 8.21e+01 1elqA 390 8.23e+01 1elqA c.67.1.3 34436 1eluA 390 8.23e+01 1elqA c.67.1.3 34434 1mp4A 292 8.33e+01 c.68.1.6 79376 1o50A 157 8.43e+01 d.37.1.1,d.37.1.1 92478,92479 1b8zA 90 8.57e+01 1huuA a.55.1.1 17902 1uddA 226 8.61e+01 a.132.1.3 107776 1r44A 202 8.64e+01 d.65.1.4 104787 1q0rA 298 8.68e+01 c.69.1.28 95508 1j77A 209 8.70e+01 1j77A a.132.1.2 62674 1mj3A 260 8.73e+01 c.14.1.3 79183 1yy7A 213 8.74e+01 1ql3A 99 8.79e+01 1ycc a.3.1.1 15822 1f6vA 91 8.83e+01 1f6vA a.49.1.1 17791 1hh2P 344 8.88e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 103m 154 8.91e+01 1a6m a.1.1.2 15124 1fkx 349 8.98e+01 1a4mA c.1.9.1 29018 1z0kB 69 8.99e+01