# 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.soe.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 1vkeA 133 3.69e-10 a.152.1.2 108650 2ouwA 138 1.59e-09 3beyA 96 2.57e-09 2q0tA 263 1.63e-08 2qeuA 141 7.80e-08 1gu9A 177 1.12e-04 a.152.1.1 65540 3c1lA 188 1.88e-04 1lw1A 177 3.96e-04 a.152.1.1 74290 2ijcA 145 5.58e-04 a.152.1.3 137465 2pfxA 191 1.21e-03 2o4dA 165 1.33e-03 a.152.1.3 138907 2prrA 197 2.46e-03 2oyoA 196 3.24e-03 2gmyA 153 4.18e-02 a.152.1.3 135398 2pefA 373 4.70e-02 2gkmA 136 4.99e-01 1idrA 136 5.03e-01 1dlyA a.1.1.1 62301 2b8eA 273 7.88e-01 c.108.1.7,d.220.1.1 128068,128069 1fs7A 485 8.07e-01 1qdbA a.138.1.3 19691 3bnjA 485 8.07e-01 1vdzA 588 1.00e+00 2okuA 131 1.52e+00 1epuA 591 1.65e+00 1dn1A e.25.1.1 43358 1f5qB 252 1.74e+00 1f5qB a.74.1.1,a.74.1.1 18362,18363 2fd5A 180 1.80e+00 a.4.1.9,a.121.1.1 133291,133292 1rcwA 231 1.98e+00 a.132.1.4 97299 1qsaA 618 2.26e+00 1qsaA a.118.5.1,d.2.1.6 19182,36988 1yzxA 226 2.36e+00 1f4lA 551 2.43e+00 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1pfvA 551 2.43e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2k29A 53 2.59e+00 1p4wA 99 2.68e+00 a.4.6.2 87783 2rasA 212 2.70e+00 2o8pA 227 2.83e+00 1n00A 321 3.33e+00 a.65.1.1 85241 1qb2A 109 3.41e+00 1qb2A a.36.1.1 17125 2o35A 105 3.70e+00 1brwA 433 3.81e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1n8vA 112 3.92e+00 a.118.21.1 85457 2eb0A 307 3.99e+00 1b0nA 111 4.03e+00 1b0nA a.34.1.1,a.35.1.3 17001,17064 2cz9A 350 4.21e+00 2dejA 350 4.29e+00 1rovA 857 4.77e+00 a.119.1.1,b.12.1.1 97674,97675 3b98A 475 4.86e+00 2gruA 368 5.26e+00 1szhA 161 5.42e+00 a.226.1.1 106157 1qgtA 149 5.58e+00 1qgtA a.62.1.1 18135 2gscA 128 5.77e+00 1xgwA 176 5.84e+00 1ow4A 129 5.93e+00 a.39.2.1 93628 1konA 249 5.94e+00 e.39.1.1 72823 2olpA 152 6.25e+00 2oa5A 110 6.26e+00 1eupA 403 6.26e+00 1rom a.104.1.1 18967 1yiiA 320 6.51e+00 1b89A 449 6.63e+00 1b89A a.118.1.3 19138 2jgzB 260 6.77e+00 1gwiA 411 6.83e+00 a.104.1.1 76364 3c8tA 451 7.09e+00 1vgoA 253 7.23e+00 1t5jA 313 7.40e+00 a.209.1.1 99125 1r9kA 172 7.52e+00 a.168.1.1 104869 2vj4A 294 7.60e+00 2z37A 244 7.68e+00 1zybA 232 7.72e+00 a.4.5.4,b.82.3.2 125815,125816 2cujA 108 7.75e+00 a.4.1.18 130812 1lkoA 191 7.91e+00 a.25.1.1,g.41.5.1 78063,78064 2g7rA 117 8.08e+00 1xsm 390 8.11e+00 1xsm 1elrA 131 8.35e+00 1a17 a.118.8.1 19209 1wvvA 265 9.00e+00 1ho8A 480 9.02e+00 1ho8A a.118.1.9 61107 1b0nB 57 9.22e+00 1b0nB a.34.1.1 17002 1io7A 368 9.22e+00 1f4tA a.104.1.1 18971 1vz0A 230 9.23e+00 a.4.14.1,d.268.1.1 108929,108930 2v26A 784 9.57e+00 2vlaA 285 9.57e+00 2i10A 202 9.64e+00 a.4.1.9,a.121.1.1 136960,136961 2bw2A 140 9.84e+00 2bnlA 136 9.99e+00 2fxaA 207 1.00e+01 a.4.5.28 134304 1gzsB 165 1.04e+01 a.168.1.1 76425 2ie7A 318 1.06e+01 a.65.1.1 137293 2aytA 237 1.07e+01 1topA 162 1.09e+01 a.39.1.5 17223 1w68A 390 1.10e+01 a.25.1.2 109216 3cloA 258 1.10e+01 1r6fA 310 1.10e+01 e.46.1.1 97149 2akaA 776 1.11e+01 1yhuB 144 1.12e+01 1w3wA 327 1.14e+01 1ji0A 240 1.15e+01 c.37.1.12 71665 2vkjA 106 1.18e+01 2ywmA 229 1.19e+01 3clqA 421 1.20e+01 2ekcA 262 1.22e+01 2rdzA 452 1.23e+01 1s69A 124 1.24e+01 a.1.1.1 105305 2yruA 118 1.25e+01 1zrnA 232 1.29e+01 c.108.1.1 43323 1j5sA 463 1.29e+01 c.1.9.8 71580 2qtqA 213 1.35e+01 1dlyA 164 1.36e+01 1dlyA a.1.1.1 14983 1omrA 201 1.37e+01 a.39.1.5 93349 1z8oA 404 1.38e+01 a.104.1.1 124722 1w9iA 770 1.39e+01 1bsgA 266 1.41e+01 e.3.1.1 42729 1axn 323 1.43e+01 1avc 1axnA 323 1.43e+01 a.65.1.1 18149 2da7A 71 1.45e+01 1jipA 403 1.46e+01 a.104.1.1 66748 1o17A 345 1.48e+01 a.46.2.1,c.27.1.1 80765,80766 2e2eA 177 1.49e+01 1ryt 190 1.57e+01 1ryt 2bkhA 814 1.60e+01 1d0yA 761 1.61e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 2ou3A 161 1.65e+01 2e3bA 344 1.70e+01 a.93.1.1 132024 2h9dA 101 1.74e+01 a.130.1.1 136250 1wgnA 63 1.76e+01 a.5.2.1 114617 2o5hA 136 1.81e+01 1khyA 148 1.81e+01 a.174.1.1 77410 1szqA 483 1.81e+01 e.44.1.1 99045 1lycA 343 1.81e+01 a.93.1.1 74344 1vquA 374 1.81e+01 1aru 344 1.82e+01 1arv 2b3hA 329 1.85e+01 1yhlA 362 1.86e+01 2b1eA 564 1.87e+01 2r4gA 267 1.89e+01 1lfpA 249 1.89e+01 e.39.1.1 73885 1u5kA 244 1.95e+01 b.40.4.13,g.45.1.2 113038,113039 2q24A 194 1.98e+01 1a8o 70 1.99e+01 1a8o 1a8oA 70 1.99e+01 a.28.3.1 16953 2oewA 380 2.05e+01 2qk2A 242 2.07e+01 1a04A 215 2.07e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 2di4A 238 2.13e+01 a.269.1.1 131522 1ockA 412 2.14e+01 c.117.1.1 86802 1uedA 406 2.16e+01 a.104.1.1 99256 1vzyA 291 2.19e+01 d.193.1.1,g.81.1.1 114042,114043 1mqsA 671 2.19e+01 e.25.1.1 79414 1z72A 225 2.23e+01 a.132.1.3 124583 2oauA 306 2.26e+01 b.38.1.3,d.58.43.1,f.34.1.1 138978,138979,138980 2h56A 233 2.29e+01 1sgmA 191 2.30e+01 a.4.1.9,a.121.1.1 105537,105538 2bduA 297 2.30e+01 2q73A 100 2.33e+01 2g09A 297 2.33e+01 1sl8A 191 2.33e+01 a.39.1.5 112099 2b8nA 429 2.36e+01 c.118.1.1 128093 2j01Q 141 2.40e+01 1s5lU 134 2.42e+01 1ygmA 118 2.43e+01 1ni4A 365 2.44e+01 c.36.1.11 85728 2o2pA 517 2.45e+01 2hm2Q 89 2.45e+01 1rd5A 262 2.45e+01 c.1.2.4 111772 1wy5A 317 2.47e+01 c.26.2.5,d.229.1.1 121428,121429 1b71A 191 2.47e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 2pmzC 392 2.47e+01 2vgxA 148 2.47e+01 2gv5A 161 2.48e+01 1puoA 170 2.49e+01 a.101.1.1,a.101.1.1 95134,95135 1yge 839 2.49e+01 1yge 1ygeA 839 2.49e+01 a.119.1.1,b.12.1.1 19234,23634 3bneA 839 2.49e+01 1allA 160 2.54e+01 1qgwC a.1.1.3 15647 2qzcA 214 2.57e+01 1avsA 90 2.57e+01 1cll a.39.1.5 17226 1tzvA 142 2.59e+01 a.79.1.1 107526 1tv8A 340 2.61e+01 c.1.28.3 107352 2gp4A 628 2.61e+01 c.8.2.2,d.334.1.1 135448,135449 2d9sA 53 2.63e+01 2fb2A 340 2.67e+01 1t2dA 322 2.68e+01 c.2.1.5,d.162.1.1 99084,99085 1k3pA 426 2.72e+01 a.103.1.1 77237 2rajA 392 2.72e+01 3c19A 186 2.73e+01 2jokA 186 2.75e+01 2ahrA 259 2.75e+01 a.100.1.10,c.2.1.6 126775,126776 2nq2C 253 2.78e+01 1vmiA 355 2.78e+01 c.77.1.5 113678 1g6uA 48 2.84e+01 1g6uA k.9.1.1 46425 1uhkA 191 2.88e+01 a.39.1.5 119681 1gcwB 135 2.94e+01 1cg5B a.1.1.2 15591 1fseA 74 2.96e+01 1fseA a.4.6.2 60000 2ozlA 365 3.03e+01 1t90A 486 3.03e+01 2bk9A 153 3.07e+01 1cg5A 141 3.09e+01 1abwA a.1.1.2 15406 2oerA 214 3.10e+01 2bcgG 453 3.11e+01 c.3.1.3,c.3.1.3,d.16.1.6 128282,128283,128284 1g2yA 32 3.11e+01 a.34.2.1 17003 1h2rL 534 3.15e+01 1h2rL e.18.1.1 43298 3b4wA 495 3.15e+01 2dvyA 226 3.16e+01 1ubkL 534 3.21e+01 e.18.1.1 88422 1oj6A 151 3.21e+01 a.1.1.2 93088 1wuiL 534 3.21e+01 e.18.1.1 121289 1e19A 314 3.22e+01 1b7bA c.73.1.1 34967 2i2xB 258 3.22e+01 1gcvB 136 3.22e+01 1cg5B a.1.1.2 15589 3c18A 290 3.25e+01 1irxA 523 3.28e+01 a.97.1.2,c.26.1.1 71378,71379 2j0fA 482 3.30e+01 1k1vA 41 3.30e+01 a.37.1.1 71999 2gfoA 396 3.35e+01 d.3.1.9 135105 1x8yA 86 3.38e+01 h.1.20.1 114969 1vmaA 306 3.40e+01 a.24.13.1,c.37.1.10 108887,108888 1iomA 377 3.41e+01 a.103.1.1 83698 1owcA 427 3.41e+01 a.103.1.1 104039 2c1mA 424 3.51e+01 2ibpA 409 3.54e+01 1dliA 402 3.58e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1tmxA 293 3.62e+01 2azqA 311 3.64e+01 1ow5A 85 3.67e+01 a.60.1.2 93630 2hneA 436 3.68e+01 1dlwA 116 3.68e+01 1dlyA a.1.1.1 14982 2r31A 239 3.70e+01 1lvk 762 3.71e+01 1lvk 1eca 136 3.73e+01 1flp 1ecaA 136 3.73e+01 a.1.1.2 15209 2hp0A 466 3.76e+01 1ixsA 62 3.76e+01 a.5.1.1 76932 1c7gA 456 3.79e+01 c.67.1.2 90415 2r5sA 176 3.80e+01 2bt2A 161 3.85e+01 1khdA 345 3.88e+01 a.46.2.1,c.27.1.1 77400,77401 1mv8A 436 3.88e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1n1bA 549 3.89e+01 a.102.4.1,a.128.1.3 79799,79800 3bgeA 201 3.90e+01 2ghjA 118 3.92e+01 2ez2A 456 3.94e+01 1uouA 474 4.03e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2qjjA 402 4.07e+01 2hfsA 332 4.10e+01 2ebdA 309 4.17e+01 1dd9A 338 4.20e+01 1dd9A e.13.1.1 43254 1efyA 350 4.22e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 2zfoB 142 4.22e+01 1yeyA 444 4.23e+01 c.1.11.2,d.54.1.1 116664,116665 1rxwA 336 4.23e+01 a.60.7.1,c.120.1.2 98059,98060 2qhpA 296 4.30e+01 1p4xA 250 4.30e+01 a.4.5.28,a.4.5.28 87784,87785 1qopA 268 4.30e+01 2tysA c.1.2.4 28570 2j9uA 96 4.34e+01 a.24.28.1 138155 2g7gA 213 4.38e+01 a.4.1.9,a.121.1.1 134732,134733 1njgA 250 4.40e+01 c.37.1.20 85785 2a6cA 83 4.43e+01 a.35.1.13 126236 2ftzA 284 4.45e+01 1je8A 82 4.47e+01 a.4.6.2 77108 2astA 159 4.47e+01 2iu4A 336 4.48e+01 2eb1A 200 4.56e+01 1oyjA 231 4.58e+01 a.45.1.1,c.47.1.5 87597,87598 1a4sA 503 4.59e+01 1bpwA c.82.1.1 35361 1phnB 172 4.60e+01 1qgwC a.1.1.3 15642 1pbyA 489 4.61e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 2hszA 243 4.63e+01 c.108.1.6 136726 2i1sA 188 4.68e+01 2ragA 417 4.69e+01 2iagA 482 4.69e+01 3b6hA 498 4.70e+01 1ux8A 132 4.75e+01 a.1.1.1 113449 1h54A 754 4.75e+01 a.102.1.4,b.30.5.3 60634,60635 3bs7A 78 4.75e+01 1eswA 500 4.83e+01 1cwyA c.1.8.1 59500 2nsnA 95 4.83e+01 2b67A 204 4.83e+01 d.90.1.1 127970 1y0uA 96 4.83e+01 a.4.5.5 116310 1mxrA 375 4.85e+01 a.25.1.2 85197 1v63A 101 4.88e+01 a.21.1.1 108391 2clbA 188 4.88e+01 1zklA 353 4.94e+01 1rec 201 4.98e+01 1rec 2du2A 374 4.99e+01 2dqsA 995 4.99e+01 1eb7A 323 5.01e+01 1eb7A a.3.1.5,a.3.1.5 59404,59405 1lj9A 144 5.02e+01 a.4.5.28 78035 2nnwA 376 5.05e+01 1n97A 389 5.10e+01 a.104.1.1 80335 1r4wA 226 5.11e+01 c.47.1.13 97050 1dofA 403 5.11e+01 1c3cA a.127.1.1 19429 2e8gA 241 5.12e+01 1fc3A 120 5.15e+01 1fc3A a.4.6.3 16237 2v0oA 276 5.16e+01 2hxtA 441 5.17e+01 2bv1A 145 5.19e+01 2bjcA 62 5.19e+01 a.35.1.5 128620 1xikA 375 5.27e+01 1xikA a.25.1.2 16784 1jpdX 324 5.30e+01 c.1.11.2,d.54.1.1 67014,67015 2rfbA 343 5.30e+01 1px5A 349 5.33e+01 a.160.1.2,d.218.1.6 95277,95278 1r1tA 122 5.34e+01 a.4.5.5 104769 1ng6A 148 5.36e+01 a.182.1.1 85670 1t6jA 714 5.42e+01 a.127.1.2 112259 2nliA 368 5.42e+01 3bujA 397 5.45e+01 2debA 653 5.50e+01 3bs5B 80 5.50e+01 1smtA 122 5.51e+01 1smtA a.4.5.5 16109 1wt4A 73 5.54e+01 2v1tA 73 5.54e+01 1u3eM 174 5.60e+01 d.4.1.3,d.285.1.1 107640,107641 1otvA 259 5.60e+01 a.132.1.4 93526 1z0xA 220 5.62e+01 a.4.1.9,a.121.1.1 124334,124335 2h4tA 626 5.75e+01 1eyvA 156 5.81e+01 1eyvA a.79.1.1 18446 2hivA 621 5.89e+01 1lj8A 493 5.89e+01 a.100.1.9,c.2.1.6 90392,90393 1ornA 226 5.90e+01 a.96.1.1 87342 2bo5A 120 5.90e+01 1jilA 420 5.91e+01 c.26.1.1 66745 1kfcA 268 5.95e+01 c.1.2.4 77371 2d59A 144 5.97e+01 c.2.1.8 131266 1y7qA 98 6.00e+01 a.28.3.2 122714 2of3A 266 6.01e+01 1om4A 422 6.05e+01 d.174.1.1 87067 1cjgA 62 6.05e+01 1pru a.35.1.5 17112 2oo9A 46 6.05e+01 2a3nA 355 6.05e+01 2dsjA 423 6.05e+01 1s5pA 235 6.06e+01 c.31.1.5 98569 1mvwA 840 6.06e+01 i.15.1.1 79523 1nv8A 284 6.08e+01 c.66.1.30 86224 1sq5A 308 6.10e+01 c.37.1.6 105882 1mhyB 395 6.13e+01 1mtyB a.25.1.2 16781 2ef8A 84 6.14e+01 1ldg 316 6.15e+01 1ceqA 2zc2A 78 6.15e+01 1fs1B 141 6.17e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1wh5A 80 6.19e+01 a.4.1.1 114633 2zbxA 412 6.20e+01 1w2yA 229 6.22e+01 a.204.1.1 109140 3clmA 352 6.23e+01 1qvtA 194 6.26e+01 a.4.1.9,a.121.1.1 104602,104603 2aioA 269 6.35e+01 d.157.1.1 126829 1smlA 269 6.35e+01 1smlA d.157.1.1 42053 2vg0A 227 6.37e+01 1k04A 162 6.42e+01 a.24.14.1 67904 1zelA 298 6.42e+01 2nz7A 98 6.44e+01 1a2xA 159 6.45e+01 1ncx a.39.1.5 17251 1s6cA 183 6.49e+01 a.39.1.5 98594 2f1sA 186 6.54e+01 2rfpA 171 6.56e+01 2fvhA 120 6.57e+01 1eq1A 166 6.60e+01 a.63.1.1 64910 1q08A 99 6.60e+01 a.6.1.3 95497 1x9fA 151 6.61e+01 a.1.1.2 114983 1wn1A 356 6.63e+01 1zd1A 284 6.64e+01 2q0zX 339 6.66e+01 1q5zA 177 6.67e+01 a.196.1.1 95954 1xqiA 195 6.67e+01 d.58.6.1 122237 1o5oA 221 6.75e+01 c.61.1.1 92509 2g3kA 94 6.78e+01 a.24.28.1 134562 2rcyA 262 6.81e+01 1qqcA 773 6.84e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 3c4bA 265 6.87e+01 2q3pA 112 6.88e+01 d.58.4.4 139798 1jt6A 188 6.89e+01 a.4.1.9,a.121.1.1 67247,67248 2fbqA 235 6.93e+01 a.4.1.9,a.121.1.1 133256,133257 1cm5A 759 6.94e+01 1cm5A c.7.1.1 30671 2c5uA 375 6.98e+01 1octC 156 7.02e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 1fxrA 64 7.02e+01 1fxd d.58.1.4 38993 2ek5A 129 7.16e+01 1h16A 759 7.16e+01 c.7.1.1 76462 2z99A 219 7.18e+01 1xo5A 183 7.18e+01 a.39.1.5 115680 1lqaA 346 7.24e+01 c.1.7.1 84674 1uby 367 7.27e+01 1uby 1dnpA 471 7.29e+01 1qnf a.99.1.1,c.28.1.1 18775,31630 1vf6C 72 7.31e+01 a.194.1.1 100602 2am1A 454 7.32e+01 2bb6A 414 7.34e+01 2dc4A 165 7.37e+01 1nfkA 325 7.38e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1bbhA 131 7.40e+01 1bbhA a.24.3.2 16546 2p54A 267 7.41e+01 a.123.1.1 139497 1aj8A 371 7.44e+01 1aj8A a.103.1.1 18900 1qo7A 394 7.48e+01 1qo7A c.69.1.11 34697 1tz9A 367 7.56e+01 c.1.15.6 107466 1d2mA 665 7.60e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1ujpA 271 7.61e+01 c.1.2.4 99462 2rccA 346 7.65e+01 2h12A 436 7.67e+01 1gntA 553 7.72e+01 e.26.1.1 70290 2hkvA 149 7.73e+01 2dpmA 284 7.73e+01 2dpmA c.66.1.28 34246 2fbnA 198 7.74e+01 a.118.8.1 133254 1oj4A 283 7.74e+01 d.14.1.5,d.58.26.5 93083,93084 1rkuA 206 7.76e+01 c.108.1.11 97627 2rn7A 108 7.78e+01 2h7cA 542 7.85e+01 c.69.1.1 136207 2g80A 253 7.88e+01 c.108.1.22 134741 2g3bA 208 7.90e+01 a.4.1.9,a.121.1.1 134558,134559 1jr8A 117 7.93e+01 a.24.15.1 67115 1mw7A 240 7.97e+01 e.39.1.1 79557