# 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 1gpmA 525 1.67e-23 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1wy5A 317 2.27e-19 2c5sA 413 9.98e-19 1ni5A 433 1.24e-17 c.26.2.5,d.229.1.1 80533,80534 1xngA 268 1.50e-15 1vl2A 421 1.93e-14 c.26.2.1,d.210.1.1 108708,108709 1korA 400 3.93e-14 c.26.2.1,d.210.1.1 72824,72825 1kqpA 271 4.05e-13 c.26.2.1 72883 1wxiA 275 1.04e-10 1zunA 325 1.20e-10 1k92A 455 7.84e-08 c.26.2.1,d.210.1.1 68325,68326 1ct9A 553 8.25e-08 1ct9A c.26.2.1,d.153.1.1 31616,41834 1q15A 503 2.74e-06 c.26.2.1,d.153.1.1 95538,95539 1m1zA 513 1.14e-05 c.26.2.1,d.153.1.1 78457,78458 2d13A 227 1.65e-05 1ru8A 232 3.74e-05 c.26.2.1 97849 1wqaA 455 8.97e-04 1jmvA 141 7.42e-02 c.26.2.4 66897 2bpqA 373 1.07e-01 1zvwA 378 1.10e-01 1qgnA 445 1.22e-01 1ibjA c.67.1.3 34403 1o89A 345 1.31e-01 b.35.1.2,c.2.1.1 92644,92645 1szrA 425 3.07e-01 1i3oA 175 3.39e-01 1pauA c.17.1.1 61603 1uj2A 252 3.67e-01 c.37.1.6 99452 1xrjA 261 3.76e-01 1sur 215 4.29e-01 1sur c.26.2.2 31620 2todA 425 4.75e-01 7odcA b.49.2.3,c.1.6.1 26489,28651 1f3tA 425 5.32e-01 7odcA b.49.2.3,c.1.6.1 26493,28655 1njjA 425 5.33e-01 b.49.2.3,c.1.6.1 91905,91906 1cp3A 277 5.74e-01 1pauA c.17.1.1 30992 1wdkA 715 6.78e-01 a.100.1.3,a.100.1.3,c.2.1.6,c.14.1.3 109250,109251,109252,109253 1nmeA 146 8.66e-01 c.17.1.1 85874 1rhjA 147 8.66e-01 c.17.1.1 97481 1vmdA 178 9.06e-01 c.24.1.2 108891 1z2iA 358 1.08e+00 1wjgA 137 1.19e+00 1zp6A 191 1.49e+00 1nmsA 249 1.58e+00 c.17.1.1 85879 1qx3A 257 1.59e+00 c.17.1.1 96515 1vr6A 350 1.70e+00 1o5wA 534 1.71e+00 c.3.1.2,d.16.1.5 92520,92521 7odcA 424 1.92e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1mj1A 405 2.25e+00 i.1.1.1 79175 1d7kA 421 2.41e+00 7odcA b.49.2.3,c.1.6.1 26486,28648 2bxrA 527 2.53e+00 1b23P 405 2.90e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25689,25729,32124 1eft 405 2.91e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1vp8A 201 3.03e+00 1z5vA 474 3.48e+00 2bk5A 520 3.64e+00 1kmjA 406 3.70e+00 c.67.1.3 68695 1kmkA 406 3.71e+00 c.67.1.3 68696 1jf9A 408 3.73e+00 1c0nA c.67.1.3 62931 2c72A 520 3.81e+00 1s3eA 520 4.13e+00 c.3.1.2,d.16.1.5 98426,98427 2c76A 520 4.14e+00 1aipA 405 4.44e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 2c75A 520 4.89e+00 1exmA 405 4.93e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2c77A 405 4.94e+00 2c78A 405 4.96e+00 1bw0A 416 5.06e+00 1bw0A c.67.1.1 34385 2br4A 236 5.23e+00 1rzmA 338 5.45e+00 c.1.10.4 105137 2bm8A 236 5.49e+00 1oxsC 353 6.06e+00 b.40.6.3,c.37.1.12 87519,87520 1u69A 163 6.12e+00 d.32.1.7 107699 1gc0A 398 6.17e+00 c.67.1.3 70168 1h19A 611 6.31e+00 a.118.1.7,b.98.1.1,d.92.1.13 70847,70848,70849 1m63A 372 6.37e+00 d.159.1.3 78677 1tib 269 6.38e+00 3tgl c.69.1.17 34738 1sqmA 610 6.39e+00 a.118.1.7,b.98.1.1,d.92.1.13 105941,105942,105943 1hs6A 611 6.47e+00 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1a6dB 543 6.74e+00 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19489,30820,38937 1mf8A 373 6.76e+00 d.159.1.3 79040 1tcoA 375 6.85e+00 1auiA d.159.1.3 42084 2c73A 520 7.28e+00 1gt6A 269 7.37e+00 c.69.1.17 76342 1u2wA 122 7.67e+00 1xi3A 215 8.03e+00 c.1.3.1 109601 2g0tA 350 8.39e+00 1dljA 402 8.70e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dkuA 317 8.88e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1dliA 402 8.94e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1auiA 521 8.96e+00 1auiA d.159.1.3 42085 1gw6A 610 9.09e+00 a.118.1.7,b.98.1.1,d.92.1.13 83342,83343,83344 1thfD 253 9.71e+00 1thfD c.1.2.1 28535 1e0rB 159 1.03e+01 1a6dA c.8.5.2 30824 1t2aA 375 1.07e+01 c.2.1.2 99078 1qczA 169 1.09e+01 1qczA c.23.8.1 31276 2ct6A 111 1.10e+01 1c0nA 406 1.12e+01 1c0nA c.67.1.3 34433 1d7aA 161 1.15e+01 1qczA c.23.8.1 31277 1ulzA 451 1.17e+01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 1vh7A 265 1.28e+01 c.1.2.1 100646 1r5bA 467 1.32e+01 b.43.3.1,b.44.1.1,c.37.1.8 104803,104804,104805 1nqfA 594 1.33e+01 f.4.3.3 86028 2a22A 215 1.33e+01 1iy9A 275 1.36e+01 c.66.1.17 76943 1nqeA 594 1.36e+01 f.4.3.3 86027 1tq8A 163 1.37e+01 c.26.2.4 107204 1iukA 140 1.39e+01 c.2.1.8 83712 2a0nA 265 1.42e+01 1p99A 295 1.44e+01 c.94.1.1 94384 1gpwA 253 1.46e+01 c.1.2.1 65460 1g67A 225 1.52e+01 c.1.3.1 60311 1cqxA 403 1.62e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1yb1A 272 1.69e+01 1bjwA 382 1.77e+01 1bjwA c.67.1.1 34349 1bkgA 385 1.78e+01 1bjwA c.67.1.1 34351 2aegA 268 1.80e+01 1yb2A 275 1.82e+01 1dekA 241 1.88e+01 1dekA c.37.1.1 31842 1g4sA 226 1.90e+01 c.1.3.1 60247 2liv 344 2.02e+01 2liv c.93.1.1 35708 1h7xA 1025 2.02e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1gteA 1025 2.02e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1z15A 344 2.04e+01 1dofA 403 2.07e+01 1c3cA a.127.1.1 19429 2fkkA 206 2.18e+01 2c7fA 513 2.18e+01 1nf7A 514 2.26e+01 c.1.5.1,d.37.1.1,d.37.1.1 91852,91853,91854 1b5oA 385 2.30e+01 c.67.1.1 90401 1b5pA 385 2.35e+01 c.67.1.1 90403 1tjoA 182 2.38e+01 1fyeA 229 2.39e+01 1fyeA c.23.16.4 31477 5bj4A 385 2.46e+01 c.67.1.1 100875 1tidB 119 2.53e+01 c.13.2.1 107000 2d69A 430 2.57e+01 1oxxK 353 2.64e+01 b.40.6.3,c.37.1.12 93715,93716 5bj3A 385 2.68e+01 c.67.1.1 100871 1o7bT 98 2.72e+01 d.169.1.4 92620 1a88A 275 2.74e+01 1brt c.69.1.12 34707 1dbxA 158 2.76e+01 1dbuA d.116.1.1 40928 2ctzA 421 2.79e+01 1t33A 224 2.85e+01 a.4.1.9,a.121.1.1 106295,106296 1i1nA 226 2.86e+01 c.66.1.7 71102 1cf3A 583 2.88e+01 1gpeA c.3.1.2,d.16.1.1 30385,37949 2lbp 346 2.91e+01 2liv c.93.1.1 35709 1t2fA 333 2.95e+01 c.2.1.5,d.162.1.1 99088,99089 1i0zA 333 2.95e+01 3ldh c.2.1.5,d.162.1.1 61495,61496 2d28C 149 2.96e+01 1vj7A 393 3.00e+01 a.211.1.1,d.218.1.8 100801,100802 2cvhA 220 3.01e+01 1oz7A 131 3.06e+01 d.169.1.1 93806 1hbxG 157 3.09e+01 1awcA a.4.5.21 60934 1zunB 434 3.11e+01 1wy9A 147 3.16e+01 1yb4A 295 3.17e+01 1mioA 533 3.23e+01 1qguA c.92.2.3 35601 2d27A 149 3.33e+01 1g6cA 227 3.36e+01 c.1.3.1 60315 1th8B 116 3.39e+01 c.13.2.1 106909 1svdA 473 3.40e+01 1ypxA 375 3.53e+01 1z7pA 117 3.54e+01 1u9pA 120 3.55e+01 2ng1 293 3.65e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1oqpA 77 3.66e+01 a.39.1.5 87319 2bn4A 682 3.67e+01 1v8fA 276 3.69e+01 c.26.1.4 100503 1ffh 294 3.72e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1ymqA 261 3.84e+01 2mucA 373 3.90e+01 1mucA c.1.11.2,d.54.1.1 29241,38885 1ng1 294 3.91e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1kao 167 3.96e+01 1ctqA c.37.1.8 32014 1rj9B 300 3.99e+01 a.24.13.1,c.37.1.10 97555,97556 1ls1A 295 4.00e+01 a.24.13.1,c.37.1.10 78170,78171 1jpnA 296 4.04e+01 a.24.13.1,c.37.1.10 67039,67040 1vbkA 307 4.04e+01 2f4mA 295 4.07e+01 1efvB 255 4.10e+01 1efvB c.26.2.3 31634 1wf1A 110 4.10e+01 1o87A 297 4.11e+01 a.24.13.1,c.37.1.10 92640,92641 1l0bA 229 4.11e+01 c.15.1.3,c.15.1.3 73391,73392 1wh5A 80 4.12e+01 1g69A 228 4.15e+01 c.1.3.1 60313 1q20A 299 4.15e+01 c.37.1.5 95616 1i10A 331 4.19e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 2fzvA 279 4.19e+01 1sxrA 183 4.22e+01 d.118.1.1 106101 2a1uB 255 4.30e+01 1vkmA 297 4.33e+01 c.138.1.1 108670 1d2eA 397 4.35e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2tpsA 227 4.41e+01 2tpsA c.1.3.1 28591 1zsqA 528 4.41e+01 1qvrA 854 4.43e+01 a.174.1.1,c.37.1.20,c.37.1.20 96432,96433,96434 1xb2A 409 4.45e+01 1xa0A 328 4.45e+01 1nthA 458 4.48e+01 c.1.25.1 80730 2csjA 117 4.48e+01 1js1X 324 4.54e+01 c.78.1.1,c.78.1.1 71834,71835 1vcnA 550 4.57e+01 c.23.16.1,c.37.1.10 108506,108507 1vcoA 550 4.59e+01 c.23.16.1,c.37.1.10 108508,108509 1nksA 194 4.61e+01 1nksA c.37.1.1 31886 1ozyA 121 4.63e+01 a.133.1.2 104047 1x5jA 113 4.65e+01 1cdwA 179 4.72e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 1kuuA 202 4.79e+01 d.153.2.1 73019 1rpnA 335 4.86e+01 c.2.1.2 97708 1vk8A 106 4.87e+01 d.58.48.1 108636 2fg6C 338 4.93e+01 2bu3A 254 4.95e+01 1jv2A 957 5.01e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1y0kA 209 5.02e+01 2gfqA 298 5.10e+01 1s2jA 209 5.11e+01 d.118.1.1 105227 2f7sA 217 5.16e+01 1tyoA 435 5.17e+01 1guaA 167 5.21e+01 1ctqA c.37.1.8 32013 9ldtA 332 5.23e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1lw3A 657 5.27e+01 b.55.1.8,c.45.1.3 91152,91153 1w6sA 599 5.30e+01 1vhh 162 5.30e+01 1vhh d.65.1.2 39550 1jhsA 188 5.34e+01 d.107.1.1 84172 2f2gA 221 5.35e+01 2btwB 254 5.36e+01 2ebn 289 5.37e+01 2ebn c.1.8.5 28990 1ufvA 276 5.41e+01 c.26.1.4 88487 1o04A 500 5.42e+01 c.82.1.1 86508 1augA 215 5.43e+01 1a2zA c.56.4.1 33798 2f96A 224 5.46e+01 1rblA 467 5.52e+01 1burA c.1.14.1,d.58.9.1 29380,39286 1d6nA 214 5.52e+01 1qk3A c.61.1.1 34077 1rscA 472 5.53e+01 1burA c.1.14.1,d.58.9.1 29381,39287 1mzhA 225 5.55e+01 c.1.10.1 79698 2b6cA 220 5.57e+01 1nmoA 247 5.67e+01 c.135.1.1 91980 1b26A 416 5.68e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1j6oA 268 5.71e+01 c.1.9.12 77088 1w2wB 191 5.72e+01 1h4jA 599 5.74e+01 4aahA b.70.1.1 60590 1jwjA 433 5.77e+01 d.174.1.1 67385 2b8eA 273 5.85e+01 1nijA 318 5.89e+01 c.37.1.10,d.237.1.1 85741,85742 1usgA 346 5.96e+01 c.93.1.1 99864 1b3bA 415 5.97e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1ww8A 439 5.98e+01 1lrwA 600 5.99e+01 b.70.1.1 91111 1vorG 178 5.99e+01 1pz3A 502 6.00e+01 b.71.1.2,c.1.8.3 95396,95397 2a59A 159 6.03e+01 1qw9A 502 6.03e+01 b.71.1.2,c.1.8.3 96466,96467 1nkwD 180 6.03e+01 i.1.1.2 80589 1m7xA 617 6.07e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1nvpA 181 6.13e+01 d.129.1.1,d.129.1.1 92209,92210 1gytA 503 6.13e+01 c.50.1.1,c.56.5.3 70765,70766 1h4iA 599 6.17e+01 4aahA b.70.1.1 60586 1wstA 417 6.18e+01 1jfiC 185 6.20e+01 1ytbA d.129.1.1,d.129.1.1 62938,62939 2cv9A 252 6.20e+01 1jwkA 434 6.21e+01 d.174.1.1 67387 1tghA 185 6.25e+01 1ytbA d.129.1.1,d.129.1.1 41214,41215 1yal 218 6.26e+01 1cs8A d.3.1.1 37025 1t57A 206 6.29e+01 c.49.1.2 106430 1iloA 77 6.36e+01 c.47.1.1 66205 1db3A 372 6.42e+01 1db3A c.2.1.2 29813 1t0lA 414 6.48e+01 c.77.1.1 106216 1z45A 699 6.48e+01 1yvlA 683 6.58e+01 1ti6A 875 6.65e+01 b.52.2.2,c.81.1.1 106974,106975 1gsa 316 6.70e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1xg5A 279 6.78e+01 1mfeH 219 6.79e+01 1mfa b.1.1.1,b.1.1.2 19893,20987 2bz1A 196 6.87e+01 1oafA 261 6.90e+01 a.93.1.1 86734 1c9bB 180 6.96e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 1xiyA 182 6.97e+01 1r17A 343 7.00e+01 b.2.3.4,b.2.3.4 96796,96797 1pjuA 123 7.01e+01 g.69.1.1,g.69.1.1 94784,94785 3mucA 369 7.07e+01 1mucA c.1.11.2,d.54.1.1 29243,38887 2agqA 341 7.10e+01 1x42A 232 7.11e+01 2f6qA 280 7.15e+01 2a4jA 79 7.18e+01 2esdA 475 7.22e+01 2fl8A 602 7.40e+01 1bkhA 369 7.41e+01 1mucA c.1.11.2,d.54.1.1 29238,38882 1xi8A 403 7.42e+01 1f7uA 607 7.51e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1mucA 373 7.53e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1xp8A 366 7.54e+01 2a87A 335 7.55e+01 1jx4A 352 7.55e+01 d.240.1.1,e.8.1.7 90378,90379 1mv8A 436 7.56e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1shlA 245 7.58e+01 c.17.1.1 105556 2bq3A 358 7.58e+01 1j72A 347 7.58e+01 d.109.1.1,d.109.1.1,d.109.1.1 84127,84128,84129 2asdA 360 7.68e+01 2c71A 216 7.70e+01 2axtH 66 7.72e+01 1glv 303 7.73e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 2tmgA 415 7.75e+01 1hwyA c.2.1.7,c.58.1.1 30238,33886 1nos 388 7.86e+01 1nseA d.174.1.1 42496 1dd7A 389 7.86e+01 1nseA d.174.1.1 42497 2fb5A 205 7.93e+01 1ehyA 294 7.93e+01 1ehyA c.69.1.11 34693 2aj4A 548 7.95e+01 1ojlA 304 7.97e+01 1g8jB 133 8.04e+01 1g8jB b.33.1.1 24439 1g8kB 133 8.05e+01 1g8jB b.33.1.1 24435 2fctA 313 8.06e+01 2ba0G 259 8.08e+01 1wzmA 585 8.15e+01 1kyqA 274 8.18e+01 c.2.1.11,e.37.1.1 73281,73282 1eq6A 189 8.23e+01 1eq6A d.107.1.1 40796 1fts 295 8.24e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1qs0B 338 8.25e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 2bp7B 339 8.26e+01 1xdiA 499 8.28e+01 1df1A 423 8.29e+01 1nseA d.174.1.1 42499 1yrwA 302 8.31e+01 2blnA 305 8.31e+01 2bhjA 422 8.32e+01 1a3h 300 8.41e+01 7a3hA c.1.8.3 28819 1qi2A 305 8.44e+01 7a3hA c.1.8.3 28824 1yovA 537 8.44e+01 7a3hA 303 8.46e+01 7a3hA c.1.8.3 28817 1f9cA 372 8.46e+01 1mucA c.1.11.2,d.54.1.1 59728,59729 1pxyA 506 8.46e+01 a.40.1.1 104384 1yadA 221 8.50e+01 1h5vA 304 8.54e+01 c.1.8.3 70898 2jelH 218 8.56e+01 1igtB b.1.1.1,b.1.1.2 19979,21035 1r35A 433 8.57e+01 1m8dA 434 8.60e+01 d.174.1.1 74581 1d2nA 272 8.62e+01 1d2nA c.37.1.20 32428 1vkiA 181 8.62e+01 d.116.1.1 108664 1j5yA 187 8.62e+01 a.4.5.1,d.94.2.1 71592,71593 1jroB 777 8.66e+01 d.41.1.1,d.133.1.1 67141,67142 1auz 116 8.69e+01 1auz c.13.2.1 30883 1qomA 440 8.71e+01 1nseA d.174.1.1 42514 1kbaA 66 8.77e+01 3ebx g.7.1.1 44431 2g2bA 150 8.78e+01 1l1sA 113 8.80e+01 c.114.1.1 73484 1g0uD 241 8.83e+01 d.153.1.4 41949 1xdjA 766 8.86e+01 1jf6A 585 8.86e+01 b.1.18.2,b.71.1.1,c.1.8.1 71650,71651,71652 1xpgA 765 8.86e+01 1lldA 319 8.90e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1m39A 89 8.93e+01 a.39.1.5 84782 1wzlA 585 8.94e+01 1aniA 446 8.96e+01 1b8jA c.76.1.1 35018 1vzwA 244 8.99e+01