# List of top-scoring protein chains for t2k-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 2g03A 194 5.21e-17 2f6sA 201 4.54e-16 1d5rA 324 3.34e-02 1d5rA b.7.1.1,c.45.1.1 23181,32697 1sxjE 354 1.45e-01 a.80.1.1,c.37.1.20 106089,106090 1omwA 689 6.15e-01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1f16A 192 9.98e-01 1f16A f.1.4.1 43400 1osa 148 2.05e+00 1cll a.39.1.5 17300 1u00A 227 2.23e+00 1ku2A 241 2.30e+00 a.4.13.1,a.177.1.1 83096,83097 1a4sA 503 4.34e+00 1bpwA c.82.1.1 35361 1nekA 588 4.66e+00 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1bpwA 503 5.41e+00 1bpwA c.82.1.1 35365 1exrA 148 5.49e+00 1cll a.39.1.5 17299 1h2aL 567 6.17e+00 1h2rL e.18.1.1 43299 2g7jA 124 6.83e+00 1ag8A 499 8.19e+00 1bpwA c.82.1.1 35341 1nzoA 363 9.43e+00 b.105.1.1,e.3.1.1 92383,92384 1o04A 500 9.53e+00 c.82.1.1 86508 1yiiA 320 9.63e+00 1y71A 130 9.84e+00 1z6fA 363 9.93e+00 1nom 248 1.06e+01 1bpyA a.60.12.1,d.218.1.2 75929,75930 1h2rL 534 1.07e+01 1h2rL e.18.1.1 43298 1ubkL 534 1.10e+01 e.18.1.1 88422 1wuiL 534 1.11e+01 2d0sA 79 1.12e+01 1nh1A 330 1.12e+01 e.45.1.1 91871 2fjbA 643 1.16e+01 1bgj 394 1.16e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1bpe 335 1.17e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1j6uA 469 1.18e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1n1bA 549 1.20e+01 a.102.4.1,a.128.1.3 79799,79800 2phh 394 1.21e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1cj3A 392 1.22e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1pbe 394 1.23e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1ykjA 394 1.24e+01 1ala 321 1.27e+01 1avc a.65.1.1 18153 1jnrA 643 1.28e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1bpb 248 1.31e+01 1bpyA a.60.12.1,d.218.1.2 75811,75812 1oglA 283 1.33e+01 a.204.1.1 92922 1k0iA 394 1.33e+01 c.3.1.2,d.16.1.2 67942,67943 2fq3A 104 1.42e+01 1uxtA 501 1.48e+01 c.82.1.1 108125 1zq7A 207 1.52e+01 1q6zA 528 1.53e+01 1gt91 357 1.53e+01 1avc 673 1.56e+01 1avc a.65.1.1,a.65.1.1 18178,18179 1bfd 528 1.59e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1gqyA 475 1.59e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1p0iA 529 1.60e+01 c.69.1.1 93867 1tazA 365 1.62e+01 a.211.1.2 106734 1t1gA 364 1.75e+01 c.41.1.2 106246 1y1xA 191 1.81e+01 2bh7A 261 1.82e+01 2bgxA 261 1.84e+01 1db1A 259 1.90e+01 1db1A a.123.1.1 19329 1vh6A 145 1.91e+01 a.24.19.1 100644 1y5eA 169 1.93e+01 1f7uA 607 2.00e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1ggzA 148 2.03e+01 a.39.1.5 70176 1z2nX 324 2.14e+01 1p3dA 475 2.17e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2gaiA 633 2.18e+01 1y60A 169 2.28e+01 1vz6A 393 2.29e+01 d.154.1.2 108949 1pu6A 218 2.33e+01 a.96.1.5 95123 1zvzA 279 2.36e+01 1zwwA 256 2.40e+01 1xxqA 161 2.41e+01 1x0vA 354 2.41e+01 1tueA 212 2.43e+01 c.37.1.20 107323 2g39A 497 2.50e+01 1mioA 534 2.56e+01 1qguA c.92.2.3 35601 1g41A 444 2.59e+01 1do0A c.37.1.20 32450 2avpA 70 2.59e+01 1u46A 291 2.61e+01 d.144.1.7 107656 1e2aA 105 2.62e+01 1e2aA a.7.2.1 16322 1t01A 255 2.66e+01 a.24.9.1,a.24.9.1 106188,106189 1fpoA 171 2.76e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1siqA 392 2.82e+01 a.29.3.1,e.6.1.1 105585,105586 1cc1L 498 2.82e+01 1h2rL e.18.1.1 43301 2ge3A 170 2.87e+01 1gtzA 156 2.90e+01 c.23.13.1 70539 1bpyA 335 2.94e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1mmoB 384 2.94e+01 1mtyB a.25.1.2 16768 1itkA 731 2.95e+01 a.93.1.3,a.93.1.3 71417,71418 1aj4 161 2.98e+01 1ncx a.39.1.5 17244 1t0aA 159 3.02e+01 2bvfA 459 3.07e+01 1zs3A 182 3.08e+01 1ydiA 263 3.13e+01 1d0iA 156 3.18e+01 2dhqA c.23.13.1 31383 1z6oA 212 3.20e+01 2di4A 238 3.21e+01 1gm5A 780 3.22e+01 a.24.21.1,b.40.4.9,c.37.1.19,c.37.1.19 65298,65299,65300,65301 1xg5A 279 3.23e+01 1y4tA 322 3.23e+01 1jlvA 209 3.24e+01 a.45.1.1,c.47.1.5 71729,71730 1hwxA 501 3.27e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 3proD 166 3.28e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1p8xA 344 3.28e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2bwvA 440 3.29e+01 1wl9A 440 3.29e+01 1az9 457 3.31e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1j6wA 175 3.32e+01 1j98A d.185.1.2 62663 16vpA 366 3.33e+01 16vpA d.180.1.1 42601 2fwtA 125 3.36e+01 1s9pA 227 3.36e+01 a.123.1.1 105384 1a16 440 3.37e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1oheA 348 3.48e+01 c.45.1.1,c.45.1.1 87013,87014 1bif 469 3.51e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1ialA 453 3.52e+01 1bk5A a.118.1.1 19116 1vkcA 158 3.55e+01 1ymtA 246 3.63e+01 1gz6A 319 3.64e+01 c.2.1.2 76410 1uddA 226 3.69e+01 a.132.1.3 107776 1ck7A 631 3.81e+01 1ck7A b.66.1.1,g.14.1.2,g.14.1.2,g.14.1.2,a.20.1.2,d.92.1.11 27538,44674,44675,44676,58969,58970 2aynA 404 3.86e+01 1nq7A 244 3.88e+01 a.123.1.1 92047 1v7bA 185 3.89e+01 1tv9A 335 3.92e+01 1vqzA 341 3.97e+01 1mc2A 122 3.98e+01 a.133.1.2 74622 1k30A 368 3.99e+01 c.112.1.1 68067 1uc8A 280 4.07e+01 c.30.1.6,d.142.1.7 99165,99166 2cwlA 302 4.07e+01 1ireB 228 4.11e+01 b.34.4.4 76770 1ugpB 226 4.11e+01 b.34.4.4 107832 2bifA 469 4.13e+01 1bif c.37.1.7,c.60.1.4 31963,34009 2f1nA 262 4.29e+01 1x0rA 249 4.30e+01 1fgyA 127 4.37e+01 1faoA b.55.1.1 26976 1h2vC 771 4.37e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 3bifA 468 4.40e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1qdbA 473 4.42e+01 1qdbA a.138.1.3 19688 1fvgA 199 4.46e+01 1fvaA d.58.28.1 39408 1fv0A 121 4.48e+01 a.133.1.2 70147 3proC 166 4.50e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1kpmA 121 4.53e+01 a.133.1.2 72844 1u35C 120 4.54e+01 1s9rA 410 4.59e+01 d.126.1.4 98758 1c3d 294 4.60e+01 1c3d a.102.4.4 18874 1lxyA 409 4.62e+01 d.126.1.4 91154 1taq 832 4.68e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1m5yA 408 4.68e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1sqzA 121 4.73e+01 a.133.1.2 98975 1tj9A 121 4.73e+01 a.133.1.2 107015 1tk4A 121 4.73e+01 a.133.1.2 107073 1zwpA 121 4.73e+01 2g58A 121 4.73e+01 1grj 158 4.74e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1fvaA 217 4.78e+01 1fvaA d.58.28.1 39409 1rpl 251 4.78e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 2b7oA 464 4.84e+01 1ea2A 131 4.87e+01 d.17.4.3 64860 3thiA 371 4.91e+01 2thiA c.94.1.1 35792 1uzbA 516 4.92e+01 c.82.1.1 100220 1zbqA 327 4.98e+01 3dni 260 5.13e+01 3dni d.151.1.1 41791 1fds 327 5.15e+01 1fds c.2.1.2 29838 2bjkA 516 5.15e+01 2e2aA 105 5.18e+01 a.7.2.1 88499 1kk8B 139 5.19e+01 a.39.1.5 77430 2g38A 99 5.25e+01 1wy7A 207 5.31e+01 1rkeA 262 5.32e+01 a.24.9.1,a.24.9.1 97608,97609 1qbkB 890 5.36e+01 1qbkB a.118.1.1 19127 1s9aA 257 5.37e+01 b.3.6.1 105379 2thiA 379 5.42e+01 2thiA c.94.1.1 35794 1rypD 241 5.43e+01 1rypD d.153.1.4 41935 1ywfA 296 5.47e+01 1wdcB 156 5.49e+01 1wdcB a.39.1.5 17302 2cw9A 194 5.54e+01 1yuzA 202 5.54e+01 2fcfA 103 5.57e+01 1jotA 133 5.59e+01 1jotA 1b89A 449 5.60e+01 1b89A a.118.1.3 19138 1bg1A 722 5.62e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1sfcC 83 5.65e+01 1sfcC h.1.15.1 45645 1x3xA 82 5.69e+01 1b7bA 310 5.70e+01 1b7bA c.73.1.1 34963 2ct8A 497 5.75e+01 1wm5A 208 5.76e+01 1hh8A 213 5.76e+01 1e96B a.118.8.1 61042 1fjeB 175 5.89e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 2cwcA 303 5.90e+01 2au3A 407 5.93e+01 1hkvA 453 6.00e+01 b.49.2.3,c.1.6.1 83559,83560 1jthA 82 6.01e+01 h.1.15.1 67270 1jgjA 217 6.03e+01 1c3wA f.13.1.1 62952 1w2yA 229 6.03e+01 a.204.1.1 109140 1dg3A 592 6.08e+01 1dg3A a.114.1.1,c.37.1.8 19078,32153 1i50A 1733 6.11e+01 e.29.1.2 61754 2a40B 260 6.11e+01 1o0xA 262 6.31e+01 d.127.1.1 80755 1j98A 157 6.34e+01 1j98A d.185.1.2 62755 1z7uA 112 6.35e+01 2gp8A 40 6.38e+01 2gp8A j.58.1.1 46343 1rypG 244 6.40e+01 d.153.1.4 41938 1paqA 189 6.44e+01 a.118.1.14 94413 1e96B 203 6.49e+01 1e96B a.118.8.1 19211 1fcdA 401 6.49e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1vqrA 297 6.55e+01 1vp6A 138 6.55e+01 1n7sC 79 6.66e+01 h.1.15.1 80273 1jk0A 419 6.72e+01 a.25.1.2 63142 1tq4A 413 6.73e+01 c.37.1.8 107201 1k4wA 252 6.73e+01 a.123.1.1 72068 1pba 81 6.76e+01 1pytA d.58.3.1 39067 1slqA 278 6.81e+01 f.47.1.1 105719 1ypyA 184 6.84e+01 1scmB 145 6.88e+01 1wdcB a.39.1.5 17304 1qghA 156 6.93e+01 1qghA a.25.1.1 16728 1ddzA 496 6.98e+01 1ddzA c.53.2.1,c.53.2.1 33372,33373 1wmwA 330 7.15e+01 1v4xB 146 7.25e+01 a.1.1.2 108364 1gadO 330 7.27e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1rtwA 220 7.28e+01 a.132.1.3 97823 1av8A 340 7.29e+01 1xikA a.25.1.2 16796 1u8vA 490 7.30e+01 1t98A 287 7.30e+01 1lycA 343 7.40e+01 a.93.1.1 74344 1wmiB 67 7.40e+01 1w53A 84 7.45e+01 a.186.1.2 109175 1qhbA 596 7.51e+01 1qhbA a.111.1.2 19055 1lml 478 7.55e+01 1lml d.92.1.3 40295 1wndA 495 7.62e+01 1avsA 90 7.67e+01 1cll a.39.1.5 17226 2awdA 323 7.69e+01 1nbwA 607 7.70e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1ribA 375 7.70e+01 1xikA a.25.1.2 16788 1gvoA 364 7.74e+01 c.1.4.1 76357 1lnwA 147 7.81e+01 a.4.5.28 78104 1rpnA 335 7.81e+01 c.2.1.2 97708 2f02A 323 7.83e+01 2fk8A 318 7.87e+01 1edoA 244 7.90e+01 1ybvA c.2.1.2 29896 2fmpA 335 7.98e+01 1gp4A 356 8.00e+01 b.82.2.1 65439 1g72B 69 8.00e+01 4aahB a.137.2.1 19627 1qwiA 143 8.02e+01 d.227.1.1 96474 1smtA 122 8.07e+01 1smtA a.4.5.5 16109 1m0kA 262 8.14e+01 f.13.1.1 78344 1cpcA 162 8.17e+01 1cpcA a.1.1.3 15643 1igwA 434 8.20e+01 c.1.12.7 62370 1xikA 375 8.26e+01 1xikA a.25.1.2 16784 1vypX 364 8.28e+01 c.1.4.1 108905 1mxrA 375 8.31e+01 a.25.1.2 85197 1aru 344 8.35e+01 1arv a.93.1.1 18589 1arv 344 8.35e+01 1arv a.93.1.1 18590 1colA 204 8.37e+01 1a87 f.1.1.1 43378 1iuqA 367 8.41e+01 c.112.1.1 90703 1f5nA 592 8.43e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1jqcA 375 8.44e+01 1xikA a.25.1.2 63229 1xqoA 256 8.44e+01 1biqA 375 8.50e+01 1xikA a.25.1.2 16786 1w78A 422 8.53e+01 1i7xB 151 8.55e+01 1i7xB j.71.1.1 61914 1uuyA 167 8.59e+01 c.57.1.1 108059 1dfoA 417 8.59e+01 1bj4A c.67.1.4 34480 1snrA 341 8.63e+01 b.6.1.3,b.6.1.3 105823,105824 1gp8A 40 8.63e+01 2gp8A j.58.1.1 46342 1bvwA 360 8.67e+01 1bvwA c.6.1.1 30668 1gp6A 356 8.76e+01 b.82.2.1 65441 1xl3C 92 8.83e+01 1et7A 341 8.88e+01 1nif b.6.1.3,b.6.1.3 23070,23071 1qmgA 524 8.92e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1yveI 524 8.92e+01 1qmgA a.100.1.2,c.2.1.6 18789,30186 1jeyB 565 8.94e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1oc7A 364 8.96e+01 c.6.1.1 86794 1qqfA 277 8.96e+01 1c3d a.102.4.4 18875