# List of top-scoring protein chains for T0316.t06-w0.5 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 1korA 400 2.02e-52 c.26.2.1,d.210.1.1 72824,72825 1vl2A 421 1.87e-46 c.26.2.1,d.210.1.1 108708,108709 1k92A 455 1.26e-27 c.26.2.1,d.210.1.1 68325,68326 1ni5A 433 1.38e-27 c.26.2.5,d.229.1.1 80533,80534 1wy5A 317 9.09e-26 1gpmA 525 5.55e-25 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1xngA 268 1.47e-16 2c5sA 413 7.93e-14 1zunA 325 1.79e-12 1kqpA 271 2.13e-09 c.26.2.1 72883 1ru8A 232 1.39e-08 c.26.2.1 97849 1ct9A 553 1.63e-08 1ct9A c.26.2.1,d.153.1.1 31616,41834 1wxiA 275 2.09e-07 2d13A 227 4.42e-07 1q15A 503 1.73e-05 c.26.2.1,d.153.1.1 95538,95539 1m1zA 513 1.87e-05 c.26.2.1,d.153.1.1 78457,78458 1sur 215 2.74e-05 1sur c.26.2.2 31620 1z2iA 358 1.28e-01 1jmvA 141 1.57e-01 c.26.2.4 66897 1v6tA 255 3.35e-01 1ulzA 451 5.70e-01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 2bpqA 373 6.09e-01 1zvwA 378 6.13e-01 1j31A 262 7.14e-01 d.160.1.2 90808 1irxA 523 7.34e-01 a.97.1.2,c.26.1.1 71378,71379 1qczA 169 8.49e-01 1qczA c.23.8.1 31276 1lfwA 470 8.52e-01 c.56.5.4,d.58.19.1 77942,77943 1d7aA 161 1.02e+00 1qczA c.23.8.1 31277 1zzmA 259 1.12e+00 1uc9A 280 1.43e+00 c.30.1.6,d.142.1.7 99169,99170 2c7fA 513 1.55e+00 1pxyA 506 1.66e+00 a.40.1.1 104384 2fq1A 287 2.09e+00 1uc8A 280 2.15e+00 c.30.1.6,d.142.1.7 99165,99166 1o5wA 534 2.52e+00 c.3.1.2,d.16.1.5 92520,92521 1czeA 396 3.31e+00 1ajsA c.67.1.1 34301 1yoo 396 3.31e+00 1ajsA c.67.1.1 34295 1lqtA 456 3.86e+00 c.3.1.1,c.4.1.1 74198,74199 1zczA 464 4.13e+00 1dljA 402 4.19e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1wjgA 137 4.42e+00 1a3gA 308 4.46e+00 1daaA e.17.1.1 43286 1ktbA 405 4.46e+00 b.71.1.1,c.1.8.1 72960,72961 1iyeA 309 4.50e+00 e.17.1.1 83786 1zccA 248 4.76e+00 1vicA 262 6.33e+00 c.68.1.13 100756 1gq6A 313 6.56e+00 c.42.1.1 70341 1nmeA 146 6.74e+00 c.17.1.1 85874 1rhjA 147 6.77e+00 c.17.1.1 97481 1ruzH 328 6.88e+00 b.19.1.2 97889 1zd3A 555 7.24e+00 1y4jA 284 7.41e+00 1jhzA 289 7.65e+00 c.93.1.1 66731 1qciA 262 7.67e+00 1qi7A d.165.1.1 42201 1qx3A 257 7.82e+00 c.17.1.1 96515 1nmsA 249 8.08e+00 c.17.1.1 85879 1nqeA 594 8.27e+00 f.4.3.3 86027 1z5vA 474 8.63e+00 1jfsA 340 8.64e+00 a.35.1.5,c.93.1.1 66650,66651 1n4qB 377 8.83e+00 a.102.4.3 91636 1dbqA 289 8.89e+00 1qpzA c.93.1.1 35666 2pucA 340 8.89e+00 1qpzA a.35.1.5,c.93.1.1 17094,35684 1c4zA 358 8.91e+00 1c4zA d.148.1.1 41766 1togA 396 9.00e+00 2liv 344 9.13e+00 2liv c.93.1.1 35708 2pugA 340 9.25e+00 1qpzA a.35.1.5,c.93.1.1 17088,35683 1tg7A 971 9.42e+00 1deuA 277 9.47e+00 1theB d.3.1.1 37085 1wzzA 334 9.62e+00 1dv1A 449 9.67e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1aam 396 9.73e+00 1ajsA c.67.1.1 34347 1nmoA 247 9.77e+00 c.135.1.1 91980 1na6A 404 9.93e+00 b.142.1.1,c.52.1.22 91748,91749 1jfjA 134 1.01e+01 a.39.1.5 66638 1qpzA 340 1.01e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1vpwA 340 1.05e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1do0A 442 1.06e+01 1do0A c.37.1.20 32432 1qqbA 340 1.07e+01 1qpzA a.35.1.5,c.93.1.1 17099,35674 1i3oA 175 1.08e+01 1pauA c.17.1.1 61603 2b30A 301 1.08e+01 1z15A 344 1.08e+01 1g4xA 396 1.09e+01 1ajsA c.67.1.1 34313 1g4aE 443 1.10e+01 1do0A c.37.1.20 32444 1dliA 402 1.11e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1x42A 232 1.17e+01 1jftA 340 1.17e+01 a.35.1.5,c.93.1.1 66652,66653 1dv2A 452 1.25e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1gpwA 253 1.27e+01 c.1.2.1 65460 1tokA 396 1.27e+01 1nqfA 594 1.32e+01 f.4.3.3 86028 1nmaN 388 1.34e+01 2qwc b.68.1.1 27590 1asg 396 1.37e+01 1ajsA c.67.1.1 34335 6nn9 388 1.38e+01 2qwc b.68.1.1 27565 1g4vA 396 1.41e+01 1ajsA c.67.1.1 34289 1e94E 449 1.41e+01 1do0A c.37.1.20 32442 1uj2A 252 1.43e+01 c.37.1.6 99452 1thfD 253 1.45e+01 1thfD c.1.2.1 28535 1vh7A 265 1.47e+01 c.1.2.1 100646 2cdcA 366 1.48e+01 1twdA 256 1.49e+01 c.1.30.1 107397 1g7xA 396 1.51e+01 1ajsA c.67.1.1 34304 1ariA 396 1.53e+01 1ajsA c.67.1.1 34331 1ars 396 1.54e+01 1ajsA c.67.1.1 34287 1bqaA 396 1.54e+01 1ajsA c.67.1.1 34298 1ncdN 389 1.55e+01 2qwc b.68.1.1 27589 1bqdA 396 1.56e+01 1ajsA c.67.1.1 34296 1qisA 396 1.57e+01 1ajsA c.67.1.1 34284 1spa 396 1.58e+01 1ajsA c.67.1.1 34291 4nn9 388 1.59e+01 2qwc b.68.1.1 27562 1qirA 396 1.60e+01 1ajsA c.67.1.1 34290 1qitA 396 1.60e+01 1ajsA c.67.1.1 34286 1nccN 389 1.62e+01 2qwc b.68.1.1 27588 1wr2A 238 1.62e+01 1etu 394 1.64e+01 1efcA c.37.1.8 64737 1ax4A 467 1.64e+01 1ax4A c.67.1.2 34391 1efvB 255 1.66e+01 1efvB c.26.2.3 31634 1aiaA 396 1.66e+01 1ajsA c.67.1.1 34306 1cr6A 554 1.67e+01 1cr6B c.69.1.11,c.108.1.2 34687,43337 2aat 396 1.68e+01 1ajsA c.67.1.1 34348 3nn9 388 1.68e+01 2qwc b.68.1.1 27566 1xoeA 387 1.68e+01 1f8eA 388 1.68e+01 2qwc b.68.1.1 59694 1h3gA 601 1.69e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2qwc 388 1.69e+01 2qwc b.68.1.1 27547 5nn9 388 1.70e+01 2qwc b.68.1.1 27563 1ncbN 389 1.71e+01 2qwc b.68.1.1 27573 1ncaN 389 1.71e+01 2qwc b.68.1.1 27579 5eaaA 396 1.72e+01 1ajsA c.67.1.1 34328 1efm 393 1.74e+01 1efcA c.37.1.8 64732 2ng1 293 1.74e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 2a1uB 255 1.75e+01 1n5dA 288 1.77e+01 c.2.1.2 80030 1rzmA 338 1.79e+01 c.1.10.4 105137 1p4sA 181 1.79e+01 c.37.1.1 94117 1zp6A 191 1.79e+01 1iny 388 1.80e+01 2qwc b.68.1.1 27569 1ypfA 336 1.82e+01 2bxrA 527 1.82e+01 1ob2A 393 1.83e+01 b.43.3.1,b.44.1.1,c.37.1.8 103900,103901,103902 1vr6A 350 1.83e+01 1dg1G 394 1.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25684,25724,32117 1efuA 385 1.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1efcA 393 1.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1u9pA 120 1.85e+01 1d8tA 393 1.87e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25686,25726,32119 2a0nA 265 1.87e+01 3aat 396 1.88e+01 1ajsA c.67.1.1 34346 1vloA 381 1.89e+01 b.44.2.1,d.250.1.1 108838,108839 1g41A 444 1.93e+01 1do0A c.37.1.20 32450 1arhA 396 1.93e+01 1ajsA c.67.1.1 34321 1wrvA 308 1.96e+01 1sawA 225 1.99e+01 1rvxA 327 2.00e+01 b.19.1.2 97937 1pz3A 502 2.00e+01 b.71.1.2,c.1.8.3 95396,95397 1fnnA 389 2.01e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1qw9A 502 2.02e+01 b.71.1.2,c.1.8.3 96466,96467 1r89A 437 2.07e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1ffh 294 2.08e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1cf2O 337 2.09e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1cp3A 277 2.11e+01 1pauA c.17.1.1 30992 1souA 194 2.14e+01 c.124.1.6 105858 1xkyA 301 2.14e+01 1tufA 434 2.14e+01 b.49.2.3,c.1.6.1 107335,107336 1g7wA 396 2.16e+01 1ajsA c.67.1.1 34308 1pca 403 2.16e+01 1aye c.56.5.1,d.58.3.1 33822,39063 1twiA 434 2.16e+01 b.49.2.3,c.1.6.1 107399,107400 1xrjA 261 2.18e+01 1ng1 294 2.21e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1vl4A 447 2.22e+01 d.283.1.1 108718 2dg4A 107 2.24e+01 1rpnA 335 2.28e+01 c.2.1.2 97708 1pvvA 315 2.38e+01 c.78.1.1,c.78.1.1 95190,95191 1rj9B 300 2.40e+01 a.24.13.1,c.37.1.10 97555,97556 1npyA 271 2.41e+01 c.2.1.7,c.58.1.5 85995,85996 1a1s 314 2.43e+01 1othA c.78.1.1,c.78.1.1 35258,35259 2ffhA 425 2.43e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1wznA 252 2.44e+01 1nmbN 470 2.48e+01 2qwc b.68.1.1 27583 1x3zA 335 2.51e+01 1ei6A 406 2.52e+01 c.76.1.4 90443 1y7aA 449 2.53e+01 2cd9A 366 2.54e+01 2cy2A 174 2.56e+01 1ls1A 295 2.62e+01 a.24.13.1,c.37.1.10 78170,78171 1uv4A 293 2.67e+01 1dofA 403 2.74e+01 1c3cA a.127.1.1 19429 1rhgA 174 2.75e+01 1bgc a.26.1.1 16812 1cd9A 175 2.82e+01 1bgc a.26.1.1 16815 1jpnA 296 2.85e+01 a.24.13.1,c.37.1.10 67039,67040 1r6fA 310 2.86e+01 e.46.1.1 97149 1jh9A 340 2.88e+01 a.35.1.5,c.93.1.1 66710,66711 1eymA 107 2.91e+01 1fkj d.26.1.1 38403 1o87A 297 2.93e+01 a.24.13.1,c.37.1.10 92640,92641 1yhfA 115 3.01e+01 1oizA 278 3.02e+01 a.5.3.1,c.13.1.1 93079,93080 1w9yA 319 3.02e+01 1ef7A 242 3.04e+01 1theB d.3.1.1 37087 1oywA 523 3.05e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1riiA 265 3.07e+01 1u11A 182 3.10e+01 c.23.8.1 107576 1idm 343 3.14e+01 1cnzA c.77.1.1 35035 1jx7A 117 3.17e+01 c.114.1.1 77195 1wf1A 110 3.17e+01 1fyeA 229 3.20e+01 1fyeA c.23.16.4 31477 1jcnA 514 3.20e+01 c.1.5.1,d.37.1.1,d.37.1.1 84160,84161,84162 1aec 218 3.27e+01 1cs8A d.3.1.1 37003 1v8aA 265 3.31e+01 c.72.1.2 100494 1wvfA 520 3.31e+01 1gnc 178 3.35e+01 1bgc a.26.1.1 16821 1bkf 107 3.35e+01 1fkj d.26.1.1 38382 1fkj 107 3.35e+01 1fkj d.26.1.1 38384 1bl4A 107 3.37e+01 1fkj d.26.1.1 38393 1tcoC 107 3.38e+01 1fkj d.26.1.1 38426 1d7kA 421 3.40e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1uarA 285 3.43e+01 c.46.1.2,c.46.1.2 107762,107763 1d6nA 214 3.47e+01 1qk3A c.61.1.1 34077 1diiA 521 3.47e+01 1qltA d.58.32.1,d.145.1.1 39481,41744 1o7bT 98 3.53e+01 d.169.1.4 92620 1r4mA 529 3.57e+01 c.111.1.2 96999 1gafL 214 3.63e+01 8fabA b.1.1.1,b.1.1.2 20082,21114 1tt5A 531 3.67e+01 c.111.1.2 107291 1yxcA 292 3.67e+01 1alkA 449 3.69e+01 1b8jA c.76.1.1 34994 1rd8A 335 3.70e+01 b.19.1.2 97308 1rvtH 328 3.74e+01 b.19.1.2 97931 2fk0A 334 3.78e+01 1yovA 537 3.78e+01 1xyzA 347 3.80e+01 1taxA c.1.8.3 28804 1o69A 394 3.86e+01 c.67.1.4 92560 1xw8A 252 3.88e+01 1vh1A 256 3.90e+01 c.68.1.13 100632 7odcA 424 3.93e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1khjA 449 3.95e+01 c.76.1.1 72481 1toiA 396 3.96e+01 1miwA 404 3.97e+01 a.173.1.1,d.218.1.4 79162,79163 2a6lA 292 4.04e+01 1ajaA 449 4.09e+01 1b8jA c.76.1.1 35010 1lf1A 308 4.10e+01 c.1.8.3 73877 1ipaA 274 4.11e+01 c.116.1.1,d.79.3.3 71254,71255 1s5vA 292 4.16e+01 c.1.10.1 98581 1gc0A 398 4.17e+01 c.67.1.3 70168 1e0rB 159 4.25e+01 1a6dA c.8.5.2 30824 1kh5A 449 4.26e+01 c.76.1.1 72475 1s5tA 292 4.28e+01 c.1.10.1 98571 1s5wA 292 4.31e+01 c.1.10.1 98583 2anhA 446 4.37e+01 1b8jA c.76.1.1 35004 1aniA 446 4.45e+01 1b8jA c.76.1.1 35018 2a4kA 263 4.47e+01 2a6nA 292 4.50e+01 1kh7A 449 4.50e+01 c.76.1.1 72477 1hqaA 449 4.56e+01 1b8jA c.76.1.1 34998 1fuiA 591 4.56e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1iokA 545 4.57e+01 a.129.1.1,c.8.5.1,d.56.1.1 66224,66225,66226 1elxA 449 4.62e+01 1b8jA c.76.1.1 35026 1cbg 490 4.63e+01 1e70M c.1.8.4 28933 1snnA 227 4.63e+01 d.115.1.2 105821 2aunA 317 4.66e+01 1m9mA 415 4.69e+01 d.174.1.1 74595 1anjA 446 4.69e+01 1b8jA c.76.1.1 35008 1y6vA 449 4.70e+01 1zrsA 317 4.74e+01 1kb9K 107 4.76e+01 b.1.1.1 77326 2f6kA 307 4.78e+01 1gjwA 637 4.80e+01 b.71.1.1,c.1.8.1 60582,60583 1p2fA 220 4.82e+01 a.4.6.1,c.23.1.1 87720,87721 1elzA 449 4.86e+01 1b8jA c.76.1.1 35022 1fkl 107 5.01e+01 1fkj d.26.1.1 38423 1dgd 432 5.01e+01 2dkb c.67.1.4 34443 1aliA 449 5.02e+01 1b8jA c.76.1.1 34996 1uteA 313 5.11e+01 1uteA d.159.1.1 42078 1w8rA 263 5.13e+01 1v6sA 390 5.16e+01 c.86.1.1 100424 1uraA 446 5.16e+01 1b8jA c.76.1.1 35002 1vheA 373 5.23e+01 b.49.3.1,c.56.5.4 100669,100670 1kp8A 547 5.23e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1iirA 415 5.28e+01 1iirA c.87.1.5 62453 1elyA 449 5.30e+01 1b8jA c.76.1.1 35028 1uqwA 509 5.31e+01 c.94.1.1 99799 2c7yA 404 5.36e+01 1jr3D 343 5.47e+01 a.80.1.1,c.37.1.20 63251,63252 1c9hA 107 5.51e+01 1fkj d.26.1.1 38425 1zl0A 311 5.55e+01 1ktkE 247 5.60e+01 b.1.1.1,b.1.1.2 72984,72985 1ix7A 396 5.61e+01 c.67.1.1 71494 1pvwA 227 5.61e+01 d.115.1.2 95192 2c78A 405 5.68e+01 1d7uA 433 5.73e+01 2dkb c.67.1.4 34439 1ss8A 524 5.77e+01 1ix8A 396 5.81e+01 c.67.1.1 71495 1sx3A 525 5.82e+01 1ko7A 314 5.85e+01 c.98.2.1,c.91.1.2 72797,72798 1ja8A 198 5.87e+01 1avmA a.2.11.1,d.44.1.1 62813,62814 3nosA 427 5.94e+01 1nseA d.174.1.1 42520 1ir6A 424 5.97e+01 c.107.1.2 71342 1dlaA 314 6.02e+01 1frb c.1.7.1 28690 1wh5A 80 6.03e+01 2ex3B 230 6.05e+01 1hjkA 449 6.11e+01 1b8jA c.76.1.1 35006 2dg9A 107 6.13e+01 1cmcA 104 6.18e+01 1cmbA a.43.1.5 17462 1ah4 315 6.18e+01 1frb c.1.7.1 28684 1mjoA 104 6.22e+01 1cmbA a.43.1.5 17466 1svtA 524 6.23e+01 1ah0 316 6.33e+01 1frb c.1.7.1 28685 1j6oA 268 6.39e+01 c.1.9.12 77088 1ojxA 263 6.46e+01 c.1.10.1 93164 1n4mA 345 6.67e+01 a.74.1.3,a.74.1.3 79994,79995 1bccD 241 6.71e+01 1be3D a.3.1.3,f.23.11.1 15959,43698 1j4zA 547 6.75e+01 a.129.1.1,c.8.5.1,d.56.1.1 90838,90839,90840 1w8sA 263 6.81e+01 1rcwA 231 6.86e+01 a.132.1.4 97299 1afwA 393 6.90e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1pxtA 390 6.90e+01 1afwA c.95.1.1,c.95.1.1 35904,35905 1oelA 547 6.90e+01 1derA a.129.1.1,c.8.5.1,d.56.1.1 19452,30781,38900 1gr5A 547 6.93e+01 i.16.1.1 65478 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