# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1tffA 234 1.92e-01 d.3.1.11 106854 1kz7A 353 1.18e+00 a.87.1.1,b.55.1.1 73333,73334 1hi0P 664 1.47e+00 1hi0P e.8.1.6 61051 1sheA 103 1.60e+00 d.274.1.1 105551 1uvjA 664 1.74e+00 e.8.1.6 100045 1hhsA 664 1.79e+00 1hi0P e.8.1.6 61045 2g7lA 243 2.25e+00 1cjbA 231 2.67e+00 1qk3A c.61.1.1 34079 1ab7 89 3.02e+00 1ay7B c.9.1.1 30835 1a16 440 3.56e+00 1az9 c.55.2.1,d.127.1.1 33548,41165 2bwvA 440 4.38e+00 1wl9A 440 4.51e+00 1az9 457 4.93e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 1am4A 199 6.08e+00 1tx4A a.116.1.1 19100 1mw5A 187 6.16e+00 d.259.1.1 91477 1tx4A 198 6.20e+00 1tx4A a.116.1.1 19098 1guxB 152 6.59e+00 1guxB a.74.1.3 18389 1qy5A 269 6.79e+00 d.122.1.1 96573 1qs2A 401 7.12e+00 1qs1A d.166.1.1,d.166.1.1 42268,42269 1vpqA 273 7.61e+00 1b2sD 90 7.65e+00 1ay7B c.9.1.1 30837 1vpmA 169 7.84e+00 1a19A 90 8.22e+00 1ay7B c.9.1.1 30831 1orjA 130 8.92e+00 a.24.19.1 93456 1b27D 90 9.78e+00 1ay7B c.9.1.1 30840 1k8kA 418 1.01e+01 c.55.1.1,c.55.1.1 68305,68306 1b2uD 90 1.08e+01 1ay7B c.9.1.1 30843 1c1kA 217 1.09e+01 1c1kA a.120.1.1 19239 1f2eA 201 1.14e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 1brsD 89 1.18e+01 1ay7B c.9.1.1 30825 1usmA 80 1.25e+01 d.74.1.1 99876 1azl 147 1.26e+01 5nul c.23.5.1 31154 1b3sD 90 1.27e+01 1ay7B c.9.1.1 30846 2f6hX 419 1.29e+01 1qs1A 462 1.31e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2fx2 147 1.38e+01 1rcf c.23.5.1 31158 1z4eA 153 1.47e+01 1ay7B 89 1.50e+01 1ay7B c.9.1.1 30836 1akt 147 1.52e+01 5nul c.23.5.1 31157 1f4pA 147 1.63e+01 5nul c.23.5.1 59651 2hmx 133 1.64e+01 1hiwA a.61.1.1 18129 1or4A 178 1.72e+01 a.1.1.2 93447 1csn 298 1.76e+01 1csn d.144.1.7 41664 1lq7A 67 1.76e+01 k.9.1.1 74183 1fsgA 233 1.78e+01 1qk3A c.61.1.1 34029 2fvhA 120 1.81e+01 1akw 147 1.88e+01 5nul c.23.5.1 31153 1vprA 374 1.94e+01 1b8zA 90 1.96e+01 1huuA a.55.1.1 17902 1grj 158 2.00e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1akr 147 2.14e+01 1rcf c.23.5.1 31152 1q5yA 85 2.14e+01 d.58.18.4 95950 2hpaA 342 2.16e+01 1cviA c.60.1.2 33985 1jxmA 301 2.34e+01 b.34.2.1,c.37.1.1 67420,67421 2ex3B 264 2.48e+01 1kjwA 295 2.51e+01 b.34.2.1,c.37.1.1 68643,68644 1e7aA 585 2.51e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19360,19361,19362 1bu5A 147 2.53e+01 5nul c.23.5.1 31155 1tq8A 163 2.53e+01 c.26.2.4 107204 1a8h 500 2.63e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1d8hA 311 2.63e+01 1d8iA d.63.1.1 39544 1xqwA 293 2.65e+01 1afrA 345 2.67e+01 1afrA a.25.1.2 16805 1ymqA 261 2.67e+01 1bxsA 501 2.70e+01 1bpwA c.82.1.1 35357 1dcs 311 2.73e+01 1dcs b.82.2.1 28124 1j9eA 147 2.74e+01 c.23.5.1 62756 1qk3A 233 2.74e+01 1qk3A c.61.1.1 34031 1r9cA 139 2.79e+01 d.32.1.2 97255 1ab4 477 2.83e+01 1ab4 e.11.1.1 43251 2givA 295 2.84e+01 1tc6A 236 2.85e+01 d.122.1.1 106756 1ydmA 187 2.92e+01 1akaA 401 2.92e+01 1ajsA c.67.1.1 34258 2b8wA 328 2.93e+01 1o4sA 389 2.95e+01 c.67.1.1 86620 1qpaA 345 2.96e+01 1arv a.93.1.1 18585 1kshA 186 2.97e+01 c.37.1.8 72914 1egiA 147 2.98e+01 1eggA d.169.1.1 42331 1woyA 500 2.98e+01 2d2yA 145 2.99e+01 2fb6A 117 3.02e+01 1jx4A 352 3.04e+01 d.240.1.1,e.8.1.7 90378,90379 1qk4A 233 3.04e+01 1qk3A c.61.1.1 34037 1b4uB 302 3.10e+01 1bouB c.56.6.1 33861 1i1iP 681 3.12e+01 1i1iP d.92.1.5 40297 1yz7A 188 3.20e+01 1zsyA 357 3.42e+01 1bj5 585 3.43e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19369,19370,19371 1rw6A 210 3.47e+01 a.47.4.1 105113 1fo3A 460 3.47e+01 1dl2A a.102.2.1 18845 1grvB 182 3.52e+01 c.61.1.1 76322 1b9lA 120 3.53e+01 1b9lA d.96.1.3 40665 2aw5A 541 3.54e+01 1ao6A 585 3.60e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19354,19355,19356 1d8iA 311 3.60e+01 1d8iA d.63.1.1 39541 1cviA 342 3.74e+01 1cviA c.60.1.2 33989 1fj2A 232 3.75e+01 1auoA c.69.1.14 34720 1rkeA 262 3.84e+01 a.24.9.1,a.24.9.1 97608,97609 1ew6A 137 3.86e+01 1ewaA a.1.1.2 15637 1v3rA 116 3.91e+01 1kktA 511 3.91e+01 a.102.2.1 68687 1dg3A 592 3.93e+01 1dg3A a.114.1.1,c.37.1.8 19078,32153 1ewaA 137 3.96e+01 1ewaA a.1.1.2 15639 1ea9C 583 3.96e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1mtzA 293 4.02e+01 c.69.1.7 79467 1s4kA 120 4.07e+01 a.35.1.6 105254 2gokA 429 4.09e+01 1oroA 213 4.10e+01 1opr c.61.1.1 34093 1vkmA 297 4.10e+01 c.138.1.1 108670 2bxkA 585 4.12e+01 1idrA 136 4.14e+01 1dlyA a.1.1.1 62301 1q8dA 108 4.17e+01 a.228.1.1 104554 1i6wA 181 4.18e+01 1i6wA c.69.1.18 61859 1d4xA 375 4.22e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1eggA 147 4.28e+01 1eggA d.169.1.1 42333 1yagA 375 4.30e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1w4rA 195 4.31e+01 1fvpA 231 4.37e+01 1nfp c.1.16.2 29556 1jjyA 636 4.38e+01 1jjyA 1su8A 636 4.38e+01 e.26.1.2 98999 1akq 147 4.39e+01 5nul c.23.5.1 31159 2btfA 375 4.39e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1xbtA 193 4.43e+01 1f5nA 592 4.55e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1iweA 457 4.56e+01 c.37.1.10 71486 1gnc 178 4.58e+01 1bgc a.26.1.1 16821 1tuzA 118 4.61e+01 1colA 204 4.66e+01 1a87 f.1.1.1 43378 1jgtA 513 4.75e+01 c.26.2.1,d.153.1.1 66684,66685 1v52A 133 4.77e+01 1erzA 303 4.79e+01 1erzA d.160.1.2 59498 1sgpI 51 4.82e+01 2ovo g.68.1.1 44678 1kn0A 212 4.82e+01 d.50.1.3 77444 1atnA 373 4.86e+01 1yagA c.55.1.1,c.55.1.1 33437,33438 1uor 585 4.95e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1j6zA 376 4.97e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 7aatA 401 5.00e+01 1ajsA c.67.1.1 34250 1dgaA 375 5.01e+01 1yagA 1bouB 302 5.03e+01 1bouB c.56.6.1 33859 1m3uA 264 5.07e+01 c.1.12.8 84784 1huw 166 5.09e+01 1huw a.26.1.1 16831 1twiA 434 5.11e+01 b.49.2.3,c.1.6.1 107399,107400 1tufA 434 5.13e+01 b.49.2.3,c.1.6.1 107335,107336 1opr 213 5.13e+01 1opr c.61.1.1 34091 1nd6A 354 5.14e+01 c.60.1.2 80407 1ew6B 137 5.18e+01 1ewaA a.1.1.2 15638 1ha2A 585 5.21e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 60866,60867,60868 1pta 318 5.25e+01 1pscA c.1.9.3 29064 1sty 150 5.27e+01 1snc b.40.1.1 24812 1o5zA 442 5.28e+01 c.59.1.2,c.72.2.2 92530,92531 2cwyA 94 5.29e+01 1l9xA 315 5.29e+01 c.23.16.1 73762 1fiuA 286 5.29e+01 1fiuA c.52.1.10 33317 1ldm 329 5.35e+01 3ldh c.2.1.5,d.162.1.1 30160,42127 1n5uA 585 5.36e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1atx 46 5.48e+01 1ahl g.9.1.1 44600 1bwsA 321 5.50e+01 1bsvA c.2.1.2 29812 1s2xA 206 5.61e+01 a.47.3.1 105229 1mk4A 157 5.62e+01 d.108.1.1 84979 1hiwA 133 5.71e+01 1hiwA a.61.1.1 18122 1qi6A 475 5.71e+01 1euhA c.82.1.1 35373 1uozA 315 5.77e+01 1oq9A 363 5.82e+01 a.25.1.2 87257 1or3A 165 5.84e+01 1nfn a.24.1.1 16522 1ihoA 283 5.85e+01 1ihoA c.26.1.4 62390 1gvhA 396 5.85e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1p68A 102 6.00e+01 k.8.1.1 94158 1xyiA 66 6.02e+01 2fw2A 260 6.05e+01 2fbmA 291 6.06e+01 1jmsA 381 6.14e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1qj2B 809 6.22e+01 1qj2B 2g39A 497 6.25e+01 1xfjA 261 6.29e+01 d.194.1.2 109585 1oaoA 674 6.35e+01 e.26.1.2 86744 1wy0A 342 6.37e+01 1ispA 181 6.38e+01 c.69.1.18 76778 1uf5A 303 6.40e+01 d.160.1.2 107808 1tlk 154 6.45e+01 1tlk b.1.1.4 21707 1gvnA 90 6.49e+01 a.8.2.1 76353 1azpA 66 6.52e+01 1azpA b.34.13.1 37467 1q1hA 110 6.62e+01 a.4.5.41 95580 1rcqA 357 6.62e+01 b.49.2.2,c.1.6.1 104882,104883 1wl8A 189 6.70e+01 1eiwA 111 6.74e+01 1eiwA c.23.3.1 31130 1apyA 162 6.75e+01 1apyA d.153.1.5 42004 1nfn 191 6.75e+01 1nfn a.24.1.1 16523 1dbrA 231 6.79e+01 1qk3A c.61.1.1 34041 1x9dA 538 6.83e+01 1m3jA 471 6.84e+01 f.9.1.1 91182 1e7rA 321 6.86e+01 1bsvA c.2.1.2 29808 2anuA 255 6.87e+01 1yzhA 214 6.88e+01 1ki1B 352 6.88e+01 a.87.1.1,b.55.1.1 72497,72498 1nnwA 252 6.90e+01 d.159.1.5 80674 2fxuA 375 6.91e+01 1bsvA 321 7.19e+01 1bsvA c.2.1.2 29809 1xdpA 687 7.19e+01 1qghA 156 7.26e+01 1qghA a.25.1.1 16728 1aq6A 253 7.27e+01 1qq5A c.108.1.1 43331 1azqA 66 7.28e+01 1azpA b.34.13.1 37469 1v5xA 203 7.29e+01 c.1.2.4 100377 1l6nA 289 7.33e+01 a.61.1.1,a.73.1.1 73624,73625 1i0dA 332 7.44e+01 1pscA c.1.9.3 61487 1q1aA 289 7.48e+01 c.31.1.5 95561 1snc 149 7.49e+01 1snc b.40.1.1 24813 1xmkA 79 7.65e+01 1ajsA 412 7.66e+01 1ajsA c.67.1.1 34276 2djkA 133 7.66e+01 2ah5A 210 7.71e+01 1gfsA 321 7.74e+01 c.2.1.2 29811 1qz5A 375 7.95e+01 c.55.1.1,c.55.1.1 96614,96615 2a5yB 549 8.01e+01 1hzyA 332 8.07e+01 1pscA c.1.9.3 61468 1uc8A 280 8.08e+01 c.30.1.6,d.142.1.7 99165,99166 1mkp 144 8.10e+01 1vhrA c.45.1.1 32654 1eyvA 156 8.11e+01 1eyvA a.79.1.1 18446 1eywA 331 8.11e+01 1pscA c.1.9.3 29057 1j1jA 240 8.13e+01 a.118.16.1 90762 1ffa 214 8.16e+01 1cex c.69.1.30 31289 1rvkA 382 8.17e+01 c.1.11.2,d.54.1.1 97928,97929 1e6uA 321 8.24e+01 1bsvA c.2.1.2 29805 1bob 320 8.27e+01 1bob d.108.1.1 40816 1qq5A 253 8.29e+01 1qq5A c.108.1.1 43327 1gjjA 168 8.29e+01 a.140.1.1,a.140.1.1 83291,83292 1ornA 226 8.33e+01 a.96.1.1 87342 1hgxA 183 8.38e+01 1tc1A c.61.1.1 34027 1eq1A 166 8.40e+01 a.63.1.1 64910 1pscA 365 8.43e+01 1pscA c.1.9.3 29058 1zxiB 809 8.45e+01 1wuaA 375 8.48e+01 1euhA 475 8.54e+01 1euhA c.82.1.1 35369 1qq7A 253 8.65e+01 1qq5A c.108.1.1 43329 1m3iA 471 8.73e+01 f.9.1.1 91178 2f4qA 346 8.78e+01 1vimA 200 8.86e+01 c.80.1.3 100758 1sig 339 8.96e+01 1sig a.177.1.1 19068 2etdA 171 8.98e+01 1e3aA 260 8.99e+01 1ajqA d.153.1.2 41838