# List of top-scoring protein chains for t06-100-30-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 1o2dA 371 2.04e-01 e.22.1.2 86591 1m6sA 347 3.82e-01 c.67.1.1 78701 1fmcA 255 4.27e-01 1cydA c.2.1.2 29856 1aisB 200 5.96e-01 1aisB a.74.1.2,a.74.1.2 18384,18385 1xmxA 385 1.09e+00 1uayA 242 1.10e+00 c.2.1.2 88390 2f46A 156 1.15e+00 2cunA 410 1.18e+00 1g94A 448 1.29e+00 b.71.1.1,c.1.8.1 65169,65170 1oi7A 288 1.39e+00 c.2.1.8,c.23.4.1 87049,87050 1pn0A 665 1.44e+00 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1v98A 140 1.65e+00 1aocA 175 1.69e+00 1aocA g.17.1.5 44817 2f51A 118 1.70e+00 2fcr 173 1.97e+00 1rcf c.23.5.1 31151 1oz9A 150 2.07e+00 d.92.1.15 93808 1fnlA 175 2.18e+00 2fcbA b.1.1.4,b.1.1.4 21783,21784 1elvA 333 2.18e+00 5ptp b.47.1.2,g.18.1.1 59454,59455 1geeA 261 2.46e+00 c.2.1.2 90509 1oaa 259 2.54e+00 1oaa c.2.1.2 29829 1w44A 331 2.78e+00 1ecfA 504 3.04e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1xx6A 191 3.07e+00 1g3qA 237 3.23e+00 1hyqA c.37.1.10 60237 1k2xB 143 3.36e+00 1olmA 403 3.62e+00 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1gveA 327 3.65e+00 c.1.7.1 70597 1ccwB 483 3.96e+00 1cb7B c.1.19.2 29646 1ijbA 202 3.99e+00 c.62.1.1 71229 1pg4A 652 4.00e+00 e.23.1.1 88067 1hw5A 210 4.10e+00 2cgpA a.4.5.4,b.82.3.2 16098,28137 1q6oA 216 4.19e+00 c.1.2.3 95986 1omoA 322 4.47e+00 c.2.1.13 104017 2f96A 224 4.82e+00 2bgkA 278 5.13e+00 2fbiA 142 5.14e+00 1kid 203 5.23e+00 1derA c.8.5.1 30771 1zin 217 5.70e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1wwiA 148 5.94e+00 1jhfA 202 6.82e+00 a.4.5.2,b.87.1.1 63057,63058 1ja9A 274 7.00e+00 c.2.1.2 62817 1sy7A 715 7.11e+00 1sdsA 117 7.23e+00 d.79.3.1 105439 1srvA 145 7.24e+00 1derA c.8.5.1 30817 2bx6A 350 7.54e+00 2c7pA 327 7.64e+00 1bif 469 7.70e+00 1bif c.37.1.7,c.60.1.4 31961,34003 1euhA 475 7.72e+00 1euhA c.82.1.1 35369 1usgA 346 8.14e+00 c.93.1.1 99864 1yymG 313 8.20e+00 1w5rA 278 8.26e+00 1ituA 369 8.28e+00 c.1.9.7 71423 1vb3A 428 8.28e+00 2bogX 286 8.59e+00 2bz1A 196 8.97e+00 1g7sA 594 9.11e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1xn7A 78 9.36e+00 2cjpA 328 9.44e+00 1vclA 432 9.73e+00 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1ckeA 227 9.88e+00 1ckeA c.37.1.1 31846 1x1zA 252 9.91e+00 1z15A 344 1.02e+01 2gwfB 134 1.05e+01 1g0oA 283 1.06e+01 1ybvA c.2.1.2 60181 1l8aA 886 1.06e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1qopA 268 1.08e+01 2tysA c.1.2.4 28570 1zjrA 211 1.09e+01 1lt8A 406 1.10e+01 c.1.26.1 78186 1vk0A 206 1.12e+01 c.55.3.5 100839 2fv7A 331 1.12e+01 2b69A 343 1.14e+01 2a6qA 86 1.18e+01 1y8qA 346 1.25e+01 1yacA 208 1.28e+01 1yacA c.33.1.3 31757 1wstA 417 1.29e+01 1geqA 248 1.36e+01 2tysA c.1.2.4 28589 1km4A 247 1.37e+01 c.1.2.3 72740 2c46A 241 1.37e+01 1gx3A 284 1.41e+01 d.3.1.5 70678 1noyA 388 1.48e+01 1clqA c.55.3.5 33713 1c6vX 81 1.48e+01 1ihvA b.34.7.1 24641 2c5aA 379 1.56e+01 2dri 271 1.57e+01 2dri c.93.1.1 35637 1thg 544 1.62e+01 1thg c.69.1.17 34763 1rypJ 204 1.63e+01 d.153.1.4 41878 1vc4A 254 1.64e+01 c.1.2.4 100557 1qmyA 167 1.65e+01 1qmyA d.3.1.2 37094 1bli 483 1.66e+01 1bli b.71.1.1,c.1.8.1 27715,28702 1umdB 324 1.69e+01 c.36.1.7,c.48.1.2 99600,99601 2c78A 405 1.71e+01 1ozhA 566 1.72e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1vp4A 425 1.75e+01 1dqpA 230 1.75e+01 1dqnA c.61.1.1 34069 2f02A 323 1.85e+01 1d3yA 301 1.85e+01 1d3yA e.12.1.1 43252 1knwA 425 1.85e+01 b.49.2.3,c.1.6.1 90969,90970 1rzsA 61 1.89e+01 a.35.1.2 105139 1rdfA 267 1.90e+01 c.108.1.3 104884 1lvaA 258 1.90e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1xbiA 120 1.90e+01 2b99A 156 1.93e+01 1pmi 440 1.93e+01 1pmi b.82.1.3 28114 1kwfA 363 1.96e+01 a.102.1.2 73078 1hh8A 213 1.97e+01 1e96B a.118.8.1 61042 2feaA 236 1.98e+01 1wi9A 72 1.99e+01 1dc1A 323 2.03e+01 1dc1A c.52.1.11 33321 2gdjA 264 2.05e+01 1yavA 159 2.06e+01 1sz7A 200 2.07e+01 2amxA 376 2.12e+01 2fb0A 94 2.17e+01 1kdgA 546 2.18e+01 c.3.1.2,d.16.1.1 77337,77338 1jmkC 230 2.20e+01 c.69.1.22 71747 1ymiA 334 2.22e+01 2bu3A 254 2.24e+01 1rkuA 206 2.26e+01 c.108.1.11 97627 1kuuA 202 2.29e+01 d.153.2.1 73019 1pmnA 364 2.37e+01 d.144.1.7 94907 2etvA 346 2.39e+01 1om1A 332 2.42e+01 d.144.1.7 93347 2bd0A 244 2.44e+01 2gjgA 248 2.44e+01 1dzlA 505 2.45e+01 1dzlA b.121.6.1 23586 2anxA 146 2.45e+01 1kdoA 227 2.46e+01 c.37.1.1 68478 1xmbA 418 2.47e+01 1e6wA 260 2.52e+01 1e6wA c.2.1.2 59326 1vflA 356 2.54e+01 1y1oA 203 2.60e+01 1nxuA 333 2.62e+01 c.122.1.1 86389 1b35D 57 2.63e+01 1b35D b.121.4.1 83038 1ypqA 135 2.65e+01 2gtrA 261 2.71e+01 1cvrA 435 2.71e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1yhpA 212 2.74e+01 2d93A 134 2.82e+01 2aeuA 374 2.82e+01 1gca 309 2.85e+01 1gca c.93.1.1 35659 1hw7A 255 2.88e+01 1i7fA d.193.1.1 61297 1ku3A 73 2.95e+01 a.4.13.2 73000 1gs5A 258 2.96e+01 c.73.1.2 70395 1b6rA 355 2.99e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1prxA 224 3.00e+01 1prxA c.47.1.10 33076 2dexX 671 3.03e+01 1u3eM 174 3.05e+01 d.4.1.3,d.285.1.1 107640,107641 2bzlA 325 3.12e+01 1twdA 256 3.13e+01 c.1.30.1 107397 2b3nA 159 3.15e+01 2b0jA 358 3.17e+01 1t95A 240 3.20e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1p4xA 250 3.21e+01 a.4.5.28,a.4.5.28 87784,87785 2gptA 523 3.23e+01 1ofdA 1520 3.25e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1ukkA 142 3.27e+01 d.227.1.1 99491 1n7hA 381 3.35e+01 c.2.1.2 80250 1vhxA 150 3.36e+01 c.55.3.8 100712 1y0nA 78 3.36e+01 1s8nA 205 3.38e+01 c.23.1.1 105374 2bpqA 373 3.46e+01 2bhvA 246 3.48e+01 2f6uA 234 3.55e+01 1oltA 457 3.56e+01 c.1.28.2 93334 1xtmA 175 3.58e+01 2ca6A 386 3.61e+01 2gcc 70 3.64e+01 2gcc d.10.1.2 37484 2d8dA 90 3.66e+01 1bbhA 131 3.66e+01 1bbhA a.24.3.2 16546 1mwvA 714 3.66e+01 a.93.1.3,a.93.1.3 85161,85162 1d4oA 184 3.67e+01 1d4oA c.31.1.4 31748 2ex2A 458 3.70e+01 1vhcA 224 3.82e+01 c.1.10.1 100661 1o7jA 327 3.84e+01 c.88.1.1 81140 2cf8H 257 3.85e+01 1wdpA 495 3.88e+01 1gegA 256 3.90e+01 1ybvA c.2.1.2 29888 1kfcA 268 3.95e+01 c.1.2.4 77371 2bynA 227 3.95e+01 1xuuA 349 3.96e+01 1gwiA 411 3.96e+01 a.104.1.1 76364 1j93A 353 3.96e+01 c.1.22.1 66454 1oeyJ 107 3.97e+01 d.15.2.2 92804 1f8mA 429 3.98e+01 1dquA c.1.12.7 29315 1h75A 81 3.99e+01 1h75A c.47.1.1 60716 2d1sA 548 4.00e+01 1x6vA 630 4.02e+01 1ss4A 153 4.06e+01 d.32.1.6 105976 1mucA 373 4.08e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 2cw5A 255 4.08e+01 1qwgA 251 4.09e+01 c.1.27.1 96473 2baa 243 4.10e+01 1cnsA d.2.1.1 36243 1p2fA 220 4.15e+01 a.4.6.1,c.23.1.1 87720,87721 1s4iA 175 4.23e+01 2bolA 314 4.24e+01 2dbbA 151 4.28e+01 1vmjA 151 4.33e+01 1im5A 180 4.38e+01 c.33.1.3 66211 1k20A 310 4.38e+01 c.107.1.1 68027 1xknA 355 4.42e+01 1hq0A 295 4.51e+01 1hzgA d.194.1.1 61122 1nar 290 4.52e+01 1nar c.1.8.5 28988 2d00A 109 4.59e+01 1o1zA 234 4.61e+01 c.1.18.3 86555 2gukA 120 4.62e+01 1wkyA 464 4.63e+01 1zl0A 311 4.71e+01 2bryA 497 4.72e+01 1xkyA 301 4.76e+01 1vzqH 250 4.85e+01 1o88A 353 4.85e+01 b.80.1.1 81178 1xt5A 135 4.86e+01 1nkiA 135 4.86e+01 d.32.1.2 91941 2ae2A 260 4.88e+01 1bdb c.2.1.2 29945 1kblA 873 4.89e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1j7xA 302 4.91e+01 c.14.1.2 66425 1xjjA 644 4.91e+01 1zzkA 82 4.94e+01 1xs1A 193 4.97e+01 1dxjA 242 4.98e+01 1cnsA d.2.1.1 36244 1zczA 464 5.02e+01 1lktA 104 5.06e+01 1lktA b.90.1.1 28398 1lj2A 110 5.11e+01 h.1.13.2 73926 1rxdA 159 5.11e+01 1n40A 396 5.12e+01 a.104.1.1 79977 1ebfA 358 5.15e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1o97C 264 5.18e+01 c.26.2.3 81232 1l5oA 356 5.22e+01 c.39.1.1 77711 1vqtA 213 5.24e+01 1vhrA 184 5.28e+01 1vhrA c.45.1.1 32651 1tz9A 367 5.35e+01 c.1.15.6 107466 1s1hC 192 5.38e+01 i.1.1.1 105156 1ymqA 261 5.38e+01 1jb9A 316 5.42e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 2a3nA 355 5.52e+01 1guxA 218 5.55e+01 1guxA a.74.1.3 18388 1v25A 541 5.56e+01 e.23.1.1 108275 1lam 484 5.58e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2fuvA 549 5.67e+01 1vzwA 244 5.71e+01 1yh1A 359 5.84e+01 1v4vA 376 5.85e+01 c.87.1.3 100313 2c4nA 250 5.90e+01 2avuE 192 5.95e+01 1u4nA 310 5.99e+01 1ezwA 349 6.01e+01 1ezwA c.1.16.3 29558 1jli 112 6.02e+01 1jli a.26.1.2 16884 2cg4A 152 6.03e+01 1yxmA 303 6.06e+01 1wxiA 275 6.09e+01 2a38A 194 6.12e+01 1n67A 359 6.15e+01 b.2.3.4,b.2.3.4 85354,85355 1y14B 171 6.16e+01 1ex0A 731 6.21e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1o60A 292 6.21e+01 c.1.10.4 92532 1uehA 253 6.30e+01 c.101.1.1 99259 2b0cA 206 6.31e+01 1k8wA 327 6.35e+01 b.122.1.1,d.265.1.2 83094,90388 1p1mA 406 6.35e+01 b.92.1.4,c.1.9.9 87696,87697 1xtyA 120 6.36e+01 1wa3A 205 6.36e+01 1fviA 297 6.36e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 1zq6A 359 6.39e+01 1jmxB 349 6.44e+01 b.69.2.2 66906 1iqcA 308 6.47e+01 a.3.1.5,a.3.1.5 66266,66267 1h80A 464 6.52e+01 b.80.1.8 65714 1ub9A 100 6.52e+01 a.4.5.28 99159 1w4rA 195 6.54e+01 1dosA 358 6.57e+01 1dosA c.1.10.2 29175 1avyA 74 6.70e+01 1avyB h.1.17.1 45656 1c1lA 136 6.70e+01 1c1lA b.29.1.3 24219 1o7sA 127 6.81e+01 b.1.1.1 86644 1uz3A 102 6.83e+01 1xsqA 168 6.83e+01 1oq9A 363 6.95e+01 a.25.1.2 87257 1lq9A 112 7.03e+01 d.58.4.3 78129 1jtvA 327 7.05e+01 c.2.1.2 84230 2fyxA 143 7.10e+01 2g09A 297 7.10e+01 1xreA 217 7.11e+01 1vp8A 201 7.15e+01 1c7qA 445 7.22e+01 2pgi c.80.1.2 35307 1m0kA 262 7.22e+01 f.13.1.1 78344 1toaA 313 7.29e+01 1toaA c.92.2.2 35598 1tqxA 227 7.30e+01 1k0eA 453 7.32e+01 d.161.1.1 67938 1y4hA 188 7.41e+01 2czcA 334 7.46e+01 2go8A 122 7.47e+01 1tuoA 464 7.49e+01 1xccA 220 7.51e+01 1ypfA 336 7.53e+01 2blnA 305 7.55e+01 1mixA 206 7.55e+01 a.11.2.1,b.55.1.5 79166,79167 1w41A 101 7.57e+01 1p80A 753 7.58e+01 c.23.16.3,e.5.1.1 94337,94338 1whsA 255 7.61e+01 1ivyA c.69.1.5 34649 1czaN 917 7.64e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1wn2A 121 7.69e+01 1kkhA 317 7.70e+01 d.14.1.5,d.58.26.3 72645,72646 1j8fA 323 7.71e+01 1j8fA c.31.1.5 62738 1a5t 334 7.72e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1rd5A 262 7.74e+01 1zemA 262 7.79e+01 1qwlA 505 7.80e+01 e.5.1.1 96483 1k8kF 168 7.84e+01 d.198.2.1 68312 1rb9 53 7.86e+01 1rb9 g.41.5.1 45214 1ni4A 365 7.89e+01 c.36.1.11 85728 1pk1B 89 7.92e+01 1po5A 476 8.03e+01 a.104.1.1 94963 2cj4A 150 8.06e+01 1lb3A 182 8.10e+01 a.25.1.1 77873 1iyrA 111 8.13e+01 a.164.1.1 76973 1iioA 84 8.14e+01 a.39.4.1 66150 1yrbA 262 8.18e+01 1tjyA 316 8.24e+01 c.93.1.1 107062 1uok 558 8.24e+01 1uok b.71.1.1,c.1.8.1 27801,28788 2as9A 210 8.25e+01 1b7yB 785 8.26e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1vi6A 208 8.27e+01 c.23.15.1 100736 1iybA 208 8.37e+01 d.124.1.1 90720 1mjhA 162 8.40e+01 1mjhA c.26.2.4 31639 2fpoA 202 8.43e+01 1yzhA 214 8.44e+01 1rh5B 74 8.45e+01 f.23.28.1 97465 1woyA 500 8.45e+01 1umdA 367 8.50e+01 c.36.1.11 99599 1snyA 267 8.50e+01 c.2.1.2 105833 1yw3A 208 8.55e+01 1a32 88 8.58e+01 1a32 a.16.1.2 16384 1fehA 574 8.61e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1yc5A 246 8.61e+01 1k4iA 233 8.62e+01 d.115.1.2 72056 1ru4A 400 8.74e+01 b.80.1.9 97836 1z85A 234 8.76e+01 1jflA 228 8.77e+01 c.78.2.1,c.78.2.1 71656,71657 1p9oA 313 8.80e+01 c.72.3.1 94397 1vhqA 232 8.83e+01 c.23.16.2 100696 1onwA 390 8.89e+01 b.92.1.7,c.1.9.13 87172,87173 1nb8A 353 8.92e+01 d.3.1.9 80385 1y791 680 8.95e+01 1ua4A 455 8.97e+01 c.72.1.3 99128 1wmiA 90 8.98e+01