# 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 6.69e-01 2amyA 246 9.33e-01 2c5kT 95 1.09e+00 1y96B 85 1.39e+00 1oyc 400 1.67e+00 1oyc c.1.4.1 28603 2b1eA 564 2.06e+00 1hwtC 81 2.08e+00 1hwtC g.38.1.1,h.1.3.1 45085,45518 1wdpA 495 2.31e+00 1t3wA 148 2.38e+00 1v3hA 495 2.45e+00 c.1.8.1 108303 1q6cA 495 2.55e+00 c.1.8.1 95970 1jixA 351 2.56e+00 1c3jA c.87.1.1 63081 1c3jA 351 2.79e+00 1c3jA c.87.1.1 35459 1ynfA 458 3.02e+00 1bbhA 131 3.03e+00 1bbhA a.24.3.2 16546 1byb 495 3.18e+00 1byb c.1.8.1 28790 1vgoA 253 3.25e+00 1wmhA 89 3.33e+00 1wdtA 665 3.35e+00 2fbhA 146 3.58e+00 1f46A 140 3.69e+00 1f46A d.129.4.1 59643 1lj9A 144 3.76e+00 a.4.5.28 78035 2agaA 190 4.09e+00 1tw9A 206 5.49e+00 a.45.1.1,c.47.1.5 107381,107382 1yirA 408 6.42e+00 1txnA 328 6.44e+00 1vd2A 89 6.68e+00 d.15.2.2 108517 1eca 136 6.88e+00 1flp a.1.1.2 15209 1eejA 216 6.95e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1q74A 303 7.28e+00 c.134.1.1 96019 1h6pA 203 7.53e+00 a.146.1.1 60690 1yzbA 182 7.87e+00 1jo0A 98 8.56e+00 d.68.4.1 77140 2a6sA 84 8.67e+00 1wy1A 172 8.76e+00 2au5A 139 9.45e+00 1ofcX 304 9.51e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1xhdA 173 9.62e+00 1j93A 353 1.08e+01 c.1.22.1 66454 1ym3A 215 1.13e+01 2a5vA 213 1.14e+01 1y9qA 192 1.14e+01 1a8h 500 1.15e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 2ajrA 331 1.15e+01 1foeA 377 1.20e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1b5tA 275 1.25e+01 1b5tA c.1.23.1 29676 1ut8A 291 1.34e+01 a.60.7.1,c.120.1.2 99908,99909 2beqD 48 1.38e+01 1b0nA 111 1.38e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1avsA 90 1.45e+01 1cll a.39.1.5 17226 1cvrA 435 1.45e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1v1dA 31 1.48e+01 1cpq 129 1.54e+01 1cpq a.24.3.2 16556 2b5aA 77 1.56e+01 1t95A 240 1.59e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1ojxA 263 1.60e+01 c.1.10.1 93164 1n4kA 381 1.66e+01 a.118.22.1,b.42.6.1 79992,79993 1eijA 80 1.67e+01 1eijA a.5.6.1 16298 1sczA 233 1.68e+01 c.43.1.1 98802 1xd8A 289 1.71e+01 2etxA 209 1.71e+01 1tr0A 108 1.71e+01 d.58.4.4 107261 1ovnA 248 1.72e+01 a.71.1.1,c.47.1.7 93602,93603 1wkyA 464 1.73e+01 1ka1A 357 1.74e+01 e.7.1.1 68369 1qgxA 357 1.75e+01 1qgxA e.7.1.1 42973 1xpcA 248 1.75e+01 2adoA 196 1.79e+01 1omrA 201 1.85e+01 a.39.1.5 93349 1ir6A 424 1.86e+01 c.107.1.2 71342 2fueA 262 1.86e+01 1tn4 159 1.89e+01 1ncx a.39.1.5 17248 3tmkA 216 1.91e+01 3tmkA c.37.1.1 31920 1top 162 1.91e+01 1ncx a.39.1.5 17223 2fu2A 102 1.91e+01 1r2rA 248 1.92e+01 c.1.1.1 96875 1jsxA 207 1.94e+01 c.66.1.20 71846 3ertA 261 1.97e+01 3erdA a.123.1.1 19292 2af4C 333 2.00e+01 1m1eB 81 2.01e+01 a.161.1.1 78400 1y7qA 98 2.01e+01 1tikA 213 2.03e+01 c.23.5.3 107003 1hulA 108 2.22e+01 1hulA a.26.1.2 16865 1xk5A 204 2.26e+01 1n3lA 372 2.28e+01 c.26.1.1 79966 2a4vA 159 2.33e+01 2f9dA 125 2.40e+01 1ockA 412 2.40e+01 c.117.1.1 86802 2b7kA 200 2.45e+01 1sauA 115 2.49e+01 2f6mA 65 2.50e+01 1vjeA 166 2.51e+01 d.185.1.2 100807 1innA 166 2.51e+01 1j98A d.185.1.2 62608 1b0b 142 2.53e+01 2fal a.1.1.2 15010 1zl8A 53 2.57e+01 1cc5 83 2.62e+01 1cc5 a.3.1.1 15901 2fsjA 346 2.65e+01 1y791 680 2.66e+01 1k5nA 276 2.67e+01 b.1.1.2,d.19.1.1 77266,77267 1pvmA 184 2.69e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2ax8A 256 2.77e+01 2ax9A 256 2.81e+01 1ap6A 198 2.88e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1woyA 500 2.91e+01 2erbA 125 2.95e+01 2amdA 311 2.96e+01 1a7w 69 3.03e+01 1a7w a.22.1.2 16477 1p9qC 256 3.04e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1zgmA 248 3.08e+01 2fnoA 248 3.08e+01 1m0uA 249 3.11e+01 a.45.1.1,c.47.1.5 78359,78360 1dugA 234 3.13e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1miwA 404 3.17e+01 a.173.1.1,d.218.1.4 79162,79163 1v3wA 173 3.19e+01 b.81.1.5 100291 1azo 232 3.22e+01 1azo c.52.1.14 33329 1p5zB 263 3.27e+01 c.37.1.1 87815 1iscA 192 3.27e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1y1xA 191 3.28e+01 1czqA 46 3.30e+01 1czqA h.3.2.1 45720 1dp3A 55 3.33e+01 1dp3A a.55.1.2 59128 1paqA 189 3.41e+01 a.118.1.14 94413 2cvhA 220 3.41e+01 1r2zA 274 3.41e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2bvyA 475 3.44e+01 1r0mA 375 3.45e+01 c.1.11.2,d.54.1.1 104747,104748 1wekA 217 3.55e+01 1rec 201 3.56e+01 1rec a.39.1.5 17326 1a4mA 349 3.62e+01 1a4mA c.1.9.1 29014 1ltsC 41 3.64e+01 1ltsC 1tph1 247 3.66e+01 1amk 2d81A 318 3.67e+01 1h5rA 293 3.68e+01 c.68.1.6 65623 1h8eA 510 3.68e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2fcwA 109 3.70e+01 1v2zA 111 3.72e+01 a.186.1.1 108300 1lqtA 456 3.72e+01 c.3.1.1,c.4.1.1 74198,74199 1q0sA 259 3.77e+01 c.66.1.28 95509 1ofdA 1520 3.78e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1w1iE 357 3.79e+01 c.1.9.1 109051 1iznB 277 3.85e+01 e.43.1.2 83848 1g0cA 364 3.90e+01 7a3hA c.1.8.3 60165 1wmaA 276 3.93e+01 1aj8A 371 3.93e+01 1aj8A a.103.1.1 18900 2ffuA 501 3.96e+01 1q2wA 308 3.99e+01 b.47.1.4 88355 1t5bA 201 4.00e+01 c.23.5.3 106433 1vflA 356 4.03e+01 1wmiB 67 4.09e+01 2fefA 294 4.12e+01 1xfuA 747 4.24e+01 1p5jA 372 4.30e+01 c.79.1.1 104067 1k2xB 143 4.32e+01 2ap3A 199 4.33e+01 1puoA 170 4.37e+01 a.101.1.1,a.101.1.1 95134,95135 1i4dA 224 4.38e+01 h.4.7.1 61682 1syyA 346 4.39e+01 a.25.1.2 106126 1upvA 257 4.40e+01 1acf 125 4.42e+01 3nul d.110.1.1 40882 2a5kA 307 4.47e+01 1v77A 212 4.51e+01 c.6.3.2 108402 1l1zA 274 4.52e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1grj 158 4.54e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1fw1A 216 4.55e+01 a.45.1.1,c.47.1.5 60051,60052 1e79A 510 4.60e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1zljA 78 4.62e+01 1im5A 180 4.62e+01 c.33.1.3 66211 3dni 260 4.68e+01 3dni d.151.1.1 41791 2ezvA 269 4.68e+01 1p65A 73 4.70e+01 d.254.1.1 94156 1kv5A 250 4.74e+01 c.1.1.1 73052 2cfxA 144 4.75e+01 1tfjA 219 4.76e+01 1z7dA 433 4.80e+01 2bskB 90 4.86e+01 1a6q 382 4.86e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 2gnoA 305 4.92e+01 1zq7A 207 4.96e+01 1sjqA 105 4.96e+01 d.58.7.1 105660 1keaA 221 4.96e+01 a.96.1.2 68491 1qz4A 213 4.98e+01 a.198.1.1 96613 1lghB 45 4.99e+01 1lghB f.3.1.1 43734 2ck3A 510 5.00e+01 2cxxA 190 5.01e+01 1q4rA 112 5.03e+01 d.58.4.4 95823 1edg 380 5.04e+01 1edg c.1.8.3 28807 1n9dA 199 5.04e+01 a.26.1.1 85464 2bezF 42 5.04e+01 1fexA 59 5.08e+01 a.4.1.3 59803 1cojA 212 5.10e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2dnjA 260 5.11e+01 3dni d.151.1.1 41790 1cmcA 104 5.13e+01 1cmbA a.43.1.5 17462 3xis 387 5.13e+01 4xis c.1.15.3 29423 1tpfA 250 5.15e+01 1amk c.1.1.1 28467 2a40B 260 5.20e+01 1xw5A 217 5.26e+01 1z5lA 285 5.33e+01 1b0nB 57 5.34e+01 1b0nB a.34.1.1 17002 1to6A 371 5.35e+01 c.141.1.1 107170 2c4jA 218 5.35e+01 2abbA 364 5.36e+01 1xfxA 777 5.36e+01 1y7yA 74 5.36e+01 1l8dA 112 5.37e+01 h.4.12.1 73687 1nvmA 345 5.37e+01 a.5.7.1,c.1.10.5 86249,86250 2cybA 323 5.39e+01 2f5tX 233 5.40e+01 1vypX 364 5.41e+01 c.1.4.1 108905 1bj7 156 5.43e+01 1bj7 b.60.1.1 27113 1ji6A 589 5.45e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1wbeA 209 5.46e+01 1mvwC 147 5.50e+01 i.15.1.1 79525 2akrA 285 5.53e+01 1vyrA 364 5.56e+01 c.1.4.1 108906 1spvA 184 5.57e+01 c.50.1.2 98957 1k8tA 510 5.58e+01 e.41.1.1 68316 1j09A 468 5.66e+01 a.97.1.1,c.26.1.1 77025,77026 1nzeA 149 5.66e+01 a.24.18.1 92374 1vjuA 309 5.67e+01 d.248.1.1 100835 1q45A 391 5.69e+01 c.1.4.1 95780 2gl5A 410 5.69e+01 1yozA 116 5.71e+01 1b8zA 90 5.72e+01 1huuA a.55.1.1 17902 1uw4A 91 5.74e+01 d.58.7.4 100071 2bmaA 470 5.74e+01 1z90A 469 5.79e+01 1sdiA 213 5.80e+01 a.198.1.1 105437 1hh2P 344 5.80e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1whzA 70 5.83e+01 1ajsA 412 5.84e+01 1ajsA c.67.1.1 34276 1zbsA 291 5.85e+01 2c1vA 338 5.90e+01 1pq9A 253 5.92e+01 a.123.1.1 95004 1aiu 105 5.95e+01 1erv c.47.1.1 32746 1dd3C 32 6.02e+01 1dd3C a.108.1.1 19033 2basA 431 6.03e+01 1cmbA 104 6.05e+01 1cmbA a.43.1.5 17460 1i37A 260 6.06e+01 1a28A a.123.1.1 61583 1auoA 218 6.09e+01 1auoA c.69.1.14 34716 1bag 425 6.12e+01 1bag b.71.1.1,c.1.8.1 27720,28707 1g6hA 257 6.22e+01 1gajA c.37.1.12 60318 1lvfA 110 6.25e+01 a.47.2.1 74280 2ar0A 541 6.26e+01 1or4A 178 6.26e+01 a.1.1.2 93447 1usuA 260 6.38e+01 d.14.1.8 99885 2be6D 37 6.50e+01 1m2dA 110 6.52e+01 c.47.1.11 78476 1e5pA 151 6.52e+01 1bj7 b.60.1.1 59272 1zroA 602 6.54e+01 2aukA 190 6.56e+01 1fkx 349 6.62e+01 1a4mA c.1.9.1 29018 1lm4A 194 6.65e+01 d.167.1.1 84626 1ufmA 84 6.70e+01 a.4.5.47 107816 1woqA 267 6.70e+01 c.55.1.10,c.55.1.10 109462,109463 1npoA 95 6.70e+01 1npoA b.9.1.1 23270 1yzyA 413 6.71e+01 2cwoA 197 6.73e+01 2b8wA 328 6.73e+01 2aynA 404 6.77e+01 1yf3A 259 6.77e+01 1ddmA 135 6.79e+01 2nmbA b.55.1.2 26993 1nh1A 330 6.83e+01 e.45.1.1 91871 1ew6A 137 6.87e+01 1ewaA a.1.1.2 15637 1nkpA 88 6.89e+01 a.38.1.1 80573 1wi6A 88 6.97e+01 1qbgA 272 6.97e+01 1d4aA c.23.5.3 31227 1c1dA 355 7.03e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1h5wA 309 7.06e+01 e.27.1.1 65635 1gjnA 153 7.07e+01 a.1.1.2 70191 1q0rA 298 7.10e+01 c.69.1.28 95508 2gwgA 350 7.17e+01 1nx8A 273 7.17e+01 b.82.2.8 86374 2frfA 153 7.21e+01 1jk0B 345 7.23e+01 a.25.1.2 63143 1qazA 351 7.25e+01 1qazA a.102.3.1 18848 1hnjA 317 7.27e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1pkhA 204 7.28e+01 b.85.4.1 94832 2mgg 154 7.30e+01 1a6m a.1.1.2 15069 1tbbA 332 7.34e+01 a.211.1.2 106741 1xorA 349 7.35e+01 2b18A 164 7.37e+01 1t0iA 191 7.42e+01 c.23.5.4 106209 1dekA 241 7.45e+01 1dekA c.37.1.1 31842 1yzmA 51 7.45e+01 1vykA 149 7.45e+01 2apjA 260 7.46e+01 1dwtA 153 7.51e+01 1a6m a.1.1.2 15190 1tzzA 392 7.52e+01 1qjtA 99 7.53e+01 1eh2 a.39.1.6 17335 1y8qA 346 7.61e+01 1lt3A 240 7.68e+01 1lt3A d.166.1.1 42230 2a0kA 161 7.76e+01 2f2tA 161 7.76e+01 1f6vA 91 7.77e+01 1f6vA a.49.1.1 17791 1nkd 65 7.81e+01 1nkd a.30.1.1 16974 1y2kA 349 7.86e+01 1dpsA 167 7.87e+01 1dpsA a.25.1.1 16716 1elqA 390 7.90e+01 1elqA c.67.1.3 34436 1eluA 390 7.90e+01 1elqA c.67.1.3 34434 1w8sA 263 7.91e+01 2f62A 161 7.95e+01 1uok 558 7.96e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1yy7A 213 7.96e+01 1hjzA 192 7.97e+01 c.50.1.2 83520 1vhuA 211 8.01e+01 c.50.1.2 100703 1btkA 169 8.05e+01 1btkA b.55.1.1 26959 1erv 105 8.08e+01 1erv c.47.1.1 32743 1q5dA 419 8.12e+01 a.104.1.1 95891 1z0kB 69 8.13e+01 2bpa1 426 8.18e+01 2bpa1 1pl4A 198 8.23e+01 a.2.11.1,d.44.1.1 94854,94855 2bkaA 242 8.24e+01 1f0jA 377 8.29e+01 1f0jA a.211.1.2 19346 1zbmA 280 8.33e+01 1wc3A 219 8.37e+01 2fpqA 444 8.40e+01 2bkfA 87 8.41e+01 1tn6A 382 8.43e+01 1lnwA 147 8.44e+01 a.4.5.28 78104 1l0wA 580 8.45e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1j79A 347 8.48e+01 1j79A c.1.9.4 62675 2gdzA 267 8.49e+01 1b67A 68 8.53e+01 1a7w a.22.1.2 16474 1iq4A 179 8.53e+01 1iq4A d.77.1.1 62641 1k1vA 41 8.54e+01 a.37.1.1 71999 1izmA 184 8.54e+01 a.199.1.1 90725 1xeuA 263 8.56e+01 1rqjA 299 8.63e+01 a.128.1.1 97744 2aaoA 166 8.68e+01 1ezvB 352 8.71e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1souA 194 8.76e+01 c.124.1.6 105858 1z0xA 220 8.76e+01 1ek9A 428 8.77e+01 1ek9A f.5.1.1 43809 1r44A 202 8.78e+01 d.65.1.4 104787 1l7yA 94 8.84e+01 d.15.1.6 73676 2bk7B 222 8.87e+01 2bo9B 222 8.87e+01 1o50A 157 8.89e+01 d.37.1.1,d.37.1.1 92478,92479 1mj3A 260 8.98e+01 c.14.1.3 79183