# List of top-scoring protein chains for T0316.t04-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 7.57e-18 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1wy5A 317 1.19e-14 1ni5A 433 2.01e-14 c.26.2.5,d.229.1.1 80533,80534 1korA 400 6.85e-14 c.26.2.1,d.210.1.1 72824,72825 1vl2A 421 1.32e-13 c.26.2.1,d.210.1.1 108708,108709 2c5sA 413 2.35e-12 1xngA 268 1.45e-09 1k92A 455 1.49e-05 c.26.2.1,d.210.1.1 68325,68326 1kqpA 271 3.78e-04 c.26.2.1 72883 2d13A 227 5.01e-04 1zunA 325 6.46e-04 1m1zA 513 1.74e-03 c.26.2.1,d.153.1.1 78457,78458 1wxiA 275 1.99e-03 1ct9A 553 3.09e-03 1ct9A c.26.2.1,d.153.1.1 31616,41834 1ru8A 232 5.63e-03 c.26.2.1 97849 1q15A 503 6.20e-03 c.26.2.1,d.153.1.1 95538,95539 1wqaA 455 5.17e-02 2bpqA 373 1.62e-01 1zvwA 378 1.68e-01 1z2iA 358 4.71e-01 1xrjA 261 9.63e-01 1szrA 425 9.87e-01 1uj2A 252 1.09e+00 c.37.1.6 99452 1efvB 255 1.30e+00 1efvB c.26.2.3 31634 2a1uB 255 1.33e+00 2todA 425 1.53e+00 7odcA b.49.2.3,c.1.6.1 26489,28651 1njjA 425 1.78e+00 b.49.2.3,c.1.6.1 91905,91906 1f3tA 425 1.78e+00 7odcA b.49.2.3,c.1.6.1 26493,28655 1sur 215 1.96e+00 1sur c.26.2.2 31620 1i3oA 175 2.67e+00 1pauA c.17.1.1 61603 7odcA 424 2.69e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1nf7A 514 3.54e+00 c.1.5.1,d.37.1.1,d.37.1.1 91852,91853,91854 1cp3A 277 4.92e+00 1pauA c.17.1.1 30992 1nmeA 146 5.06e+00 c.17.1.1 85874 2bxrA 527 5.09e+00 1rhjA 147 5.10e+00 c.17.1.1 97481 1o5wA 534 5.53e+00 c.3.1.2,d.16.1.5 92520,92521 1ypxA 375 6.09e+00 1xi8A 403 6.46e+00 1jmvA 141 6.89e+00 c.26.2.4 66897 1d7kA 421 8.77e+00 7odcA b.49.2.3,c.1.6.1 26486,28648 1o89A 345 8.87e+00 b.35.1.2,c.2.1.1 92644,92645 1wjgA 137 9.10e+00 1qgnA 445 9.59e+00 1ibjA c.67.1.3 34403 1d6nA 214 9.71e+00 1qk3A c.61.1.1 34077 2a22A 215 1.25e+01 1wdkA 715 1.25e+01 a.100.1.3,a.100.1.3,c.2.1.6,c.14.1.3 109250,109251,109252,109253 1nmsA 249 1.26e+01 c.17.1.1 85879 1nqeA 594 1.26e+01 f.4.3.3 86027 1qx3A 257 1.28e+01 c.17.1.1 96515 2c7fA 513 1.29e+01 1xm7A 195 1.30e+01 1g8kB 133 1.32e+01 1g8jB b.33.1.1 24435 1nqfA 594 1.34e+01 f.4.3.3 86028 1vp8A 201 1.34e+01 1g8jB 133 1.35e+01 1g8jB b.33.1.1 24439 1jr1A 514 1.37e+01 c.1.5.1,d.37.1.1,d.37.1.1 63241,63242,63243 1eeaA 534 1.49e+01 2bce c.69.1.1 34609 2cekA 535 1.53e+01 1gqrA 532 1.53e+01 c.69.1.1 70374 2dfpA 534 1.53e+01 2bce c.69.1.1 34597 1ut6A 537 1.56e+01 1mioA 533 1.61e+01 1qguA c.92.2.3 35601 1ea5A 537 1.61e+01 2bce c.69.1.1 34592 1w6rA 543 1.64e+01 1zp6A 191 1.69e+01 1dekA 241 1.73e+01 1dekA c.37.1.1 31842 2c0cA 362 1.85e+01 2liv 344 1.94e+01 2liv c.93.1.1 35708 1svdA 473 2.00e+01 1eepA 404 2.00e+01 1ak5 c.1.5.1 28636 1z15A 344 2.06e+01 1wh5A 80 2.16e+01 1tjoA 182 2.29e+01 1g67A 225 2.32e+01 c.1.3.1 60311 1xpgA 765 2.40e+01 1xdjA 766 2.41e+01 1t7lA 766 2.43e+01 1r5bA 467 2.49e+01 b.43.3.1,b.44.1.1,c.37.1.8 104803,104804,104805 1ti6A 875 2.59e+01 b.52.2.2,c.81.1.1 106974,106975 1jcnA 514 2.63e+01 c.1.5.1,d.37.1.1,d.37.1.1 84160,84161,84162 1dliA 402 2.65e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1g4sA 226 2.70e+01 c.1.3.1 60247 1qoxA 449 2.81e+01 c.1.8.4 28965 1dljA 402 2.83e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1c7gA 456 2.87e+01 c.67.1.2 90415 2bleA 367 3.10e+01 1hbxG 157 3.10e+01 1awcA a.4.5.21 60934 1rpnA 335 3.24e+01 c.2.1.2 97708 1s0yA 76 3.30e+01 d.80.1.1 98314 1dofA 403 3.37e+01 1c3cA a.127.1.1 19429 1qpiA 203 3.38e+01 2tct a.4.1.9,a.121.1.1 16072,19249 1p8kZ 254 3.49e+01 d.95.2.1,d.95.2.1 94361,94362 1qvbA 481 3.50e+01 1qvbA c.1.8.4 28983 1qw9A 502 3.52e+01 b.71.1.2,c.1.8.3 96466,96467 1bjz 207 3.52e+01 2tct a.4.1.9,a.121.1.1 16065,19242 2tct 207 3.53e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1i1nA 226 3.56e+01 c.66.1.7 71102 9ldtA 332 3.64e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1xr7A 460 3.67e+01 1i0zA 333 3.68e+01 3ldh c.2.1.5,d.162.1.1 61495,61496 1t2fA 333 3.69e+01 c.2.1.5,d.162.1.1 99088,99089 1pz3A 502 3.72e+01 b.71.1.2,c.1.8.3 95396,95397 1mxsA 225 3.81e+01 c.1.10.1 91494 2trt 217 3.82e+01 2tct a.4.1.9,a.121.1.1 16064,19241 1vpbA 451 3.89e+01 2g0tA 350 3.99e+01 1vbkA 307 4.06e+01 8rucA 475 4.10e+01 1burA c.1.14.1,d.58.9.1 29339,39245 1rxoB 475 4.11e+01 1burA c.1.14.1,d.58.9.1 29352,39258 1mzhA 225 4.17e+01 c.1.10.1 79698 1bw0A 416 4.18e+01 1bw0A c.67.1.1 34385 1g6cA 227 4.18e+01 c.1.3.1 60315 2cvhA 220 4.19e+01 1qczA 169 4.26e+01 1qczA c.23.8.1 31276 1d7aA 161 4.40e+01 1qczA c.23.8.1 31277 1rblA 467 4.42e+01 1burA c.1.14.1,d.58.9.1 29380,39286 1rscA 472 4.43e+01 1burA c.1.14.1,d.58.9.1 29381,39287 1fnnA 389 4.50e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1qvrA 854 4.52e+01 a.174.1.1,c.37.1.20,c.37.1.20 96432,96433,96434 2b3zA 373 4.53e+01 1iu9A 111 4.83e+01 c.78.2.1 90694 1iy9A 275 4.89e+01 c.66.1.17 76943 1g69A 228 5.00e+01 c.1.3.1 60313 1jflA 228 5.09e+01 c.78.2.1,c.78.2.1 71656,71657 1b26A 416 5.20e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 2a7rA 366 5.43e+01 2c6qA 351 5.44e+01 2axuA 317 5.49e+01 1yvlA 683 5.64e+01 2etvA 346 5.83e+01 1b3bA 415 5.84e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 2tpsA 227 5.85e+01 2tpsA c.1.3.1 28591 2awiA 317 5.87e+01 1js1X 324 6.10e+01 c.78.1.1,c.78.1.1 71834,71835 2fg6C 338 6.27e+01 1kmkA 406 6.27e+01 c.67.1.3 68696 1rr7A 129 6.42e+01 a.4.1.14 105075 1thfD 253 6.47e+01 1thfD c.1.2.1 28535 1obbA 480 6.61e+01 c.2.1.5,d.162.1.2 86760,86761 1vr6A 350 6.72e+01 2f4mA 295 6.79e+01 1vlvA 325 6.92e+01 c.78.1.1,c.78.1.1 108866,108867 1goiA 499 7.01e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1ursA 402 7.08e+01 c.94.1.1 99833 1ogbA 499 7.14e+01 b.72.2.1,c.1.8.5,d.26.3.1 92882,92883,92884 1ur9A 499 7.14e+01 b.72.2.1,c.1.8.5,d.26.3.1 99819,99820,99821 2gfqA 298 7.28e+01 2lbp 346 7.35e+01 2liv c.93.1.1 35709 1z5vA 474 7.35e+01 1qy7A 112 7.45e+01 d.58.5.1 96575 1pxyA 506 7.52e+01 a.40.1.1 104384 1vrcA 136 7.65e+01 1pdo 135 7.68e+01 1pdo c.54.1.1 33376 1i10A 331 7.68e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 1q20A 299 7.71e+01 c.37.1.5 95616 2ct6A 111 7.77e+01 1dbp 271 7.91e+01 2dri c.93.1.1 35639 1vh7A 265 7.92e+01 c.1.2.1 100646 1lldA 319 8.00e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1rzmA 338 8.01e+01 c.1.10.4 105137 1uwdA 103 8.05e+01 1rtwA 220 8.07e+01 a.132.1.3 97823 1o04A 500 8.07e+01 c.82.1.1 86508 1zccA 248 8.12e+01 1x5jA 113 8.36e+01 1l1sA 113 8.37e+01 c.114.1.1 73484 2bn4A 682 8.40e+01 1e6pA 499 8.51e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1o02A 500 8.62e+01 c.82.1.1 86499 1cw3A 494 8.62e+01 1bpwA c.82.1.1 35349 1zumA 500 8.63e+01 1sknP 92 8.66e+01 1sknP a.37.1.1 17127 1z5yE 149 8.70e+01 1oz7A 131 8.72e+01 d.169.1.1 93806 1tp7A 460 8.76e+01 1g5qA 181 8.99e+01 1g5qA c.34.1.1 60288