# List of top-scoring protein chains for T0321.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 1vpdA 299 4.18e-01 2gf2A 296 4.69e-01 1usgA 346 8.22e-01 c.93.1.1 99864 2lbp 346 9.12e-01 2liv c.93.1.1 35709 1slm 255 1.38e+00 1hfc a.20.1.2,d.92.1.11 59042,59043 1gaeO 330 2.05e+00 1dssG c.2.1.3,d.81.1.1 29954,39869 1gadO 330 2.05e+00 1dssG c.2.1.3,d.81.1.1 29950,39865 1s7cA 331 2.08e+00 c.2.1.3,d.81.1.1 105346,105347 2liv 344 2.30e+00 2liv c.93.1.1 35708 1yxbA 98 2.30e+00 1xkrA 206 2.67e+00 1ni7A 155 3.20e+00 d.224.1.1 85738 1lluA 342 3.24e+00 b.35.1.2,c.2.1.1 91064,91065 1rcuA 195 4.03e+00 c.129.1.1 97295 1z15A 344 4.65e+00 1xhcA 367 5.72e+00 1ma3A 253 5.77e+00 c.31.1.5 78883 1dzlA 505 5.84e+00 1dzlA b.121.6.1 23586 1pswA 348 6.02e+00 c.87.1.7 88287 1x5xA 109 6.57e+00 1zitA 121 6.75e+00 1bdg 451 6.78e+00 1qhaA c.55.1.3,c.55.1.3 33461,33462 1yumA 242 7.28e+00 1ufrA 181 7.37e+00 c.61.1.1 99354 1zctA 290 7.86e+00 1lsuA 147 7.99e+00 c.2.1.9 74250 1dljA 402 8.17e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 8.41e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1l7rA 574 8.54e+00 b.18.1.13,c.69.1.21 77793,77794 1iz5A 249 8.59e+00 d.131.1.2,d.131.1.2 83834,83835 1p3iB 102 8.63e+00 a.22.1.1 94015 1tqgA 105 8.92e+00 a.24.10.3 107224 1zcvA 353 9.10e+00 1l7qA 574 9.17e+00 b.18.1.13,c.69.1.21 77791,77792 1vr7A 142 9.36e+00 1ll2A 333 9.44e+00 c.68.1.14 74005 1i21A 159 9.46e+00 1i21A d.108.1.1 61549 2c35A 152 9.47e+00 1ll0A 339 9.49e+00 c.68.1.14 73995 1i12A 160 9.49e+00 1i21A d.108.1.1 61515 1i1dA 161 9.54e+00 1i21A d.108.1.1 61526 1ju3A 583 9.55e+00 b.18.1.13,c.69.1.21 67300,67301 1zcuA 353 1.04e+01 1vrdA 494 1.06e+01 1yocA 147 1.06e+01 1zcyA 353 1.07e+01 1piwA 360 1.10e+01 b.35.1.2,c.2.1.1 104156,104157 1wu2A 396 1.15e+01 1haxB 240 1.30e+01 5ptp b.47.1.2 60883 1xi8A 403 1.31e+01 2gwrA 238 1.33e+01 1tluA 130 1.40e+01 d.156.1.2 107139 2ashA 381 1.40e+01 1p3fB 102 1.48e+01 a.22.1.1 93999 1nunB 230 1.57e+01 b.1.1.4,b.1.1.4 80735,80736 1id3B 102 1.57e+01 a.22.1.1 66113 7fabH 217 1.59e+01 1igtB b.1.1.1,b.1.1.2 19777,20887 1tmiA 130 1.69e+01 d.156.1.2 107151 1yxyA 234 1.77e+01 1wwkA 307 1.78e+01 1m2jA 249 1.87e+01 c.31.1.5 84753 1yqzA 438 1.88e+01 1m2gA 249 1.89e+01 c.31.1.5 84750 1m2hA 249 1.89e+01 c.31.1.5 84751 1iciA 256 1.94e+01 1iciA c.31.1.5 62266 1gc0A 398 1.99e+01 c.67.1.3 70168 1n71A 180 2.02e+01 d.108.1.1 85370 1b87A 181 2.02e+01 1b87A d.108.1.1 40797 1i60A 278 2.03e+01 c.1.15.4 71118 2a4nA 182 2.03e+01 1ko6A 187 2.11e+01 b.119.1.1 77471 1mrzA 293 2.12e+01 b.43.5.1,c.26.1.3 91452,91453 1m2aA 110 2.13e+01 c.47.1.11 78472 1m2bA 110 2.14e+01 c.47.1.11 78474 1yrlA 491 2.22e+01 1p3bB 102 2.23e+01 a.22.1.1 93989 1kr1A 273 2.25e+01 c.1.8.5 68846 1sddA 306 2.32e+01 b.6.1.3,b.6.1.3 105431,105432 1pjtA 457 2.33e+01 c.2.1.11,c.90.1.1,e.37.1.1 94778,94779,94780 1pjqA 457 2.41e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1djsA 216 2.46e+01 1cvsC b.1.1.4,b.1.1.4 21746,21747 1e0oB 219 2.49e+01 1cvsC b.1.1.4,b.1.1.4 21748,21749 1ev2E 220 2.49e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1usn 165 2.52e+01 1hfc d.92.1.11 40372 1b8yA 167 2.52e+01 1hfc d.92.1.11 40377 1kqzA 273 2.52e+01 c.1.8.5 68844 1cizA 168 2.53e+01 1hfc d.92.1.11 40371 1nr9A 223 2.54e+01 d.177.1.1 86119 1hy7A 173 2.59e+01 d.92.1.11 65957 1umsA 174 2.60e+01 1hfc d.92.1.11 40368 2bdwA 362 2.63e+01 1mqsA 671 2.67e+01 e.25.1.1 79414 1u0uA 397 2.67e+01 2bxrA 527 2.68e+01 1zlyA 203 2.72e+01 1i2aA 219 2.72e+01 e.24.1.1 90660 1meoA 209 2.76e+01 c.65.1.1 79035 2b1xA 470 2.77e+01 1q3aA 165 2.78e+01 d.92.1.11 95664 1xesA 413 2.80e+01 1gvkB 240 2.82e+01 b.47.1.2 70610 1esb 241 2.82e+01 5ptp b.47.1.2 26276 1qnjA 240 2.86e+01 5ptp b.47.1.2 26238 1mejA 223 2.88e+01 c.65.1.1 79029 2bgkA 278 2.92e+01 1t3lA 337 3.06e+01 b.34.2.1,c.37.1.1 106358,106359 1dzuP 215 3.27e+01 2fua c.74.1.1 34975 1sumB 235 3.28e+01 a.7.12.1 106025 1aoiB 87 3.30e+01 1aoiB a.22.1.1 16470 1wg8A 285 3.31e+01 2b0cA 206 3.31e+01 1h7nA 340 3.36e+01 1b4kA c.1.10.3 60726 1h7oA 341 3.37e+01 c.1.10.3 60727 1ohlA 342 3.38e+01 c.1.10.3 87035 1y8aA 332 3.40e+01 1e4bP 215 3.42e+01 2fua c.74.1.1 34970 1dzxP 215 3.49e+01 2fua c.74.1.1 34979 1fua 215 3.51e+01 2fua c.74.1.1 34973 1e4cP 215 3.54e+01 2fua c.74.1.1 34969 2avyQ 83 3.59e+01 1e4aP 214 3.65e+01 2fua c.74.1.1 34980 1mv8A 436 3.69e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1m2dA 110 3.79e+01 c.47.1.11 78476 1mt0A 241 3.83e+01 c.37.1.12 85096 1kx5B 102 3.85e+01 a.22.1.1 77594 1yrrA 382 3.86e+01 1xefA 241 3.87e+01 1onfA 500 3.88e+01 c.3.1.5,c.3.1.5,d.87.1.1 87141,87142,87143 1lldA 319 3.90e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1tzyD 103 3.93e+01 a.22.1.1 107533 1rjwA 339 3.95e+01 b.35.1.2,c.2.1.1 97582,97583 1cxc 124 3.97e+01 1ycc a.3.1.1 15890 1h1dA 221 3.99e+01 c.66.1.1 83452 1e47P 215 4.06e+01 2fua c.74.1.1 34976 1e49P 215 4.06e+01 2fua c.74.1.1 34981 1p3gB 102 4.07e+01 a.22.1.1 94007 1ylvA 342 4.11e+01 1b4kA c.1.10.3 29180 2hioD 103 4.23e+01 1aoiB a.22.1.1 16468 1p71A 94 4.27e+01 a.55.1.1 87840 2c4nA 250 4.44e+01 1c8tA 167 4.46e+01 1hfc d.92.1.11 40390 1q9uA 130 4.50e+01 d.129.7.1 96314 1e46P 215 4.60e+01 2fua c.74.1.1 34984 1bxbA 387 4.60e+01 4xis c.1.15.3 29543 1p3pB 102 4.69e+01 a.22.1.1 94058 1yc5A 246 4.76e+01 1lbqA 362 5.01e+01 c.92.1.1 77877 1m73E 288 5.14e+01 c.56.2.1 91211 1rszA 289 5.15e+01 2dldA 337 5.16e+01 1dxy c.2.1.4,c.23.12.1 30099,31359 1j08A 226 5.16e+01 c.47.1.2,c.47.1.2 83855,83856 1aw5 340 5.17e+01 1b4kA c.1.10.3 29181 1fstA 182 5.17e+01 1rhoA b.1.18.8 60008 1hh4D 204 5.20e+01 b.1.18.8 61039 1jb3A 131 5.21e+01 1jc7A b.40.3.2 62833 1dzzP 215 5.28e+01 2fua c.74.1.1 34971 1pxuA 131 5.28e+01 b.40.3.2 104383 1hyuA 521 5.29e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1php 394 5.30e+01 16pk c.86.1.1 35452 1dzvP 215 5.30e+01 2fua c.74.1.1 34972 1jc7A 131 5.33e+01 1jc7A b.40.3.2 62873 1dzwP 215 5.37e+01 2fua c.74.1.1 34978 1kjwA 295 5.41e+01 b.34.2.1,c.37.1.1 68643,68644 1fl2A 310 5.43e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1o12A 376 5.43e+01 b.92.1.5,c.1.9.10 80758,80759 1ii4E 220 5.47e+01 1cvsC b.1.1.4,b.1.1.4 62404,62405 1cxvA 164 5.50e+01 1ck7A d.92.1.11 40404 1jxmA 301 5.52e+01 b.34.2.1,c.37.1.1 67420,67421 1m2kA 249 5.66e+01 c.31.1.5 84754 2ghiA 260 5.90e+01 1np3A 338 5.90e+01 a.100.1.2,c.2.1.6 85946,85947 2ffgA 87 5.96e+01 1k5cA 335 6.06e+01 b.80.1.3 72076 1avqA 228 6.08e+01 1avqA c.52.1.13 33326 1z5hA 780 6.08e+01 1e48P 215 6.15e+01 2fua c.74.1.1 34974 1gw0A 559 6.21e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1e6bA 221 6.46e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 1vizA 240 6.55e+01 c.1.4.1 100784 1dgsA 667 6.59e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1yqdA 366 6.65e+01 2eslA 190 6.71e+01 1kr0A 273 6.74e+01 c.1.8.5 68845 1ps9A 671 6.74e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1rl0A 255 6.79e+01 1qp8A 303 6.94e+01 1qp8A c.2.1.4,c.23.12.1 30092,31352 1j31A 262 6.94e+01 d.160.1.2 90808 4uagA 437 7.17e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 2fh5A 185 7.24e+01 1gdtA 183 7.30e+01 2rslA a.4.1.2,c.53.1.1 16021,33348 1rm8A 169 7.34e+01 d.92.1.11 97660 1wpbA 172 7.49e+01 1pf5A 131 7.81e+01 d.79.1.1 94604 1lssA 140 7.91e+01 c.2.1.9 74246 1quqB 121 7.99e+01 1quqB b.40.4.3 25305 1y9aA 360 8.31e+01 2blfA 373 8.39e+01 1fljA 260 8.43e+01 2cba b.74.1.1 27954 1bjx 110 8.44e+01 1bjx c.47.1.2 32774 1j04A 392 8.53e+01 c.67.1.3 90734 1h0cA 392 8.60e+01 c.67.1.3 83424 1f1oA 431 8.63e+01 1f1oA a.127.1.1 19433 2dfdA 342 8.72e+01 1fyeA 229 8.82e+01 1fyeA c.23.16.4 31477 2cs5A 119 8.84e+01 1w4xA 542 8.91e+01 c.3.1.5,c.3.1.5 109171,109172 1q3iA 214 8.92e+01 d.220.1.1 104524 1qwjA 229 8.93e+01 c.68.1.13 96478