# List of top-scoring protein chains for T0321.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 2gf2A 296 8.36e-01 1vpdA 299 9.06e-01 2lbp 346 1.25e+00 2liv c.93.1.1 35709 1usgA 346 1.35e+00 c.93.1.1 99864 1i21A 159 3.27e+00 1i21A d.108.1.1 61549 1i12A 160 3.29e+00 1i21A d.108.1.1 61515 1i1dA 161 3.31e+00 1i21A d.108.1.1 61526 1lluA 342 3.34e+00 b.35.1.2,c.2.1.1 91064,91065 1ni7A 155 3.55e+00 d.224.1.1 85738 1yxbA 98 3.80e+00 2liv 344 3.81e+00 2liv c.93.1.1 35708 1l7rA 574 4.09e+00 b.18.1.13,c.69.1.21 77793,77794 1l7qA 574 4.31e+00 b.18.1.13,c.69.1.21 77791,77792 1gaeO 330 4.41e+00 1dssG c.2.1.3,d.81.1.1 29954,39869 1xkrA 206 4.43e+00 1gadO 330 4.45e+00 1dssG c.2.1.3,d.81.1.1 29950,39865 1s7cA 331 4.50e+00 c.2.1.3,d.81.1.1 105346,105347 1ju3A 583 4.60e+00 b.18.1.13,c.69.1.21 67300,67301 1n71A 180 4.89e+00 d.108.1.1 85370 1b87A 181 4.90e+00 1b87A d.108.1.1 40797 1slm 255 4.91e+00 1hfc a.20.1.2,d.92.1.11 59042,59043 2a4nA 182 4.91e+00 1dljA 402 5.06e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 5.20e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1vr7A 142 6.10e+00 1piwA 360 6.37e+00 b.35.1.2,c.2.1.1 104156,104157 1lsuA 147 6.58e+00 c.2.1.9 74250 1x5xA 109 7.18e+00 1z15A 344 7.38e+00 1tqgA 105 8.15e+00 a.24.10.3 107224 1haxB 240 9.06e+00 5ptp b.47.1.2 60883 1tluA 130 9.76e+00 d.156.1.2 107139 1pswA 348 9.93e+00 c.87.1.7 88287 1wu2A 396 9.96e+00 1yrlA 491 9.98e+00 1zitA 121 1.09e+01 1ufrA 181 1.10e+01 c.61.1.1 99354 1wwkA 307 1.15e+01 1tmiA 130 1.18e+01 d.156.1.2 107151 1rcuA 195 1.22e+01 c.129.1.1 97295 1nunB 230 1.29e+01 b.1.1.4,b.1.1.4 80735,80736 2c35A 152 1.30e+01 1xhcA 367 1.36e+01 1p3iB 102 1.41e+01 a.22.1.1 94015 1zctA 290 1.51e+01 1bdg 451 1.60e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1mrzA 293 1.71e+01 b.43.5.1,c.26.1.3 91452,91453 1gvkB 240 1.75e+01 b.47.1.2 70610 1esb 241 1.75e+01 5ptp b.47.1.2 26276 1qnjA 240 1.78e+01 5ptp b.47.1.2 26238 1zcvA 353 1.79e+01 1ll2A 333 1.81e+01 c.68.1.14 74005 1ll0A 339 1.82e+01 c.68.1.14 73995 1vrdA 494 1.84e+01 1sddA 306 1.90e+01 b.6.1.3,b.6.1.3 105431,105432 1djsA 216 1.96e+01 1cvsC b.1.1.4,b.1.1.4 21746,21747 1e0oB 219 1.98e+01 1cvsC b.1.1.4,b.1.1.4 21748,21749 1ev2E 220 1.98e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1dzlA 505 2.01e+01 1dzlA b.121.6.1 23586 2ashA 381 2.04e+01 1zcuA 353 2.04e+01 1zcyA 353 2.07e+01 1xi8A 403 2.14e+01 1yxyA 234 2.16e+01 1id3B 102 2.25e+01 a.22.1.1 66113 1yumA 242 2.27e+01 1u0uA 397 2.30e+01 1p3fB 102 2.32e+01 a.22.1.1 93999 1xesA 413 2.39e+01 1i60A 278 2.39e+01 c.1.15.4 71118 1i2aA 219 2.50e+01 e.24.1.1 90660 2gwrA 238 2.55e+01 1kr1A 273 2.63e+01 c.1.8.5 68846 1m2aA 110 2.72e+01 c.47.1.11 78472 1gc0A 398 2.73e+01 c.67.1.3 70168 1ko6A 187 2.75e+01 b.119.1.1 77471 1pjtA 457 2.75e+01 c.2.1.11,c.90.1.1,e.37.1.1 94778,94779,94780 1qp8A 303 2.79e+01 1qp8A c.2.1.4,c.23.12.1 30092,31352 1pjqA 457 2.82e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1xdwA 331 2.83e+01 7fabH 217 2.91e+01 1igtB b.1.1.1,b.1.1.2 19777,20887 1m2bA 110 2.91e+01 c.47.1.11 78474 1kqzA 273 2.95e+01 c.1.8.5 68844 1yrrA 382 2.95e+01 2c4nA 250 2.99e+01 1zlyA 203 3.00e+01 1wg8A 285 3.04e+01 1meoA 209 3.07e+01 c.65.1.1 79035 1q3aA 165 3.12e+01 d.92.1.11 95664 2b1xA 470 3.14e+01 1kjwA 295 3.14e+01 b.34.2.1,c.37.1.1 68643,68644 1php 394 3.14e+01 16pk c.86.1.1 35452 1mejA 223 3.19e+01 c.65.1.1 79029 1jxmA 301 3.20e+01 b.34.2.1,c.37.1.1 67420,67421 1p3bB 102 3.29e+01 a.22.1.1 93989 1ma3A 253 3.34e+01 c.31.1.5 78883 2dldA 337 3.38e+01 1dxy c.2.1.4,c.23.12.1 30099,31359 1o12A 376 3.50e+01 b.92.1.5,c.1.9.10 80758,80759 1m2jA 249 3.51e+01 c.31.1.5 84753 1m2hA 249 3.54e+01 c.31.1.5 84751 1m2gA 249 3.54e+01 c.31.1.5 84750 1iciA 256 3.60e+01 1iciA c.31.1.5 62266 1e6bA 221 3.62e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 1ag9A 175 3.64e+01 1rcf c.23.5.1 31178 1usn 165 3.70e+01 1hfc d.92.1.11 40372 1b8yA 167 3.71e+01 1hfc d.92.1.11 40377 1cizA 168 3.72e+01 1hfc d.92.1.11 40371 1hy7A 173 3.79e+01 d.92.1.11 65957 1umsA 174 3.80e+01 1hfc d.92.1.11 40368 1iz5A 249 3.90e+01 d.131.1.2,d.131.1.2 83834,83835 1fl2A 310 3.99e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1dzuP 215 4.11e+01 2fua c.74.1.1 34975 1mv8A 436 4.17e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1mqsA 671 4.19e+01 e.25.1.1 79414 1yocA 147 4.21e+01 1e4bP 215 4.22e+01 2fua c.74.1.1 34970 1k5cA 335 4.26e+01 b.80.1.3 72076 1e4aP 214 4.35e+01 2fua c.74.1.1 34980 1fua 215 4.36e+01 2fua c.74.1.1 34973 1dzxP 215 4.36e+01 2fua c.74.1.1 34979 1e4cP 215 4.40e+01 2fua c.74.1.1 34969 1e47P 215 4.41e+01 2fua c.74.1.1 34976 2ffgA 87 4.44e+01 1aoiB 87 4.56e+01 1aoiB a.22.1.1 16470 1m2dA 110 4.58e+01 c.47.1.11 78476 2bgkA 278 4.62e+01 1ii4E 220 4.69e+01 1cvsC b.1.1.4,b.1.1.4 62404,62405 1x0oA 119 4.78e+01 1cxc 124 4.82e+01 1ycc a.3.1.1 15890 1t3lA 337 4.82e+01 b.34.2.1,c.37.1.1 106358,106359 2dfdA 342 4.84e+01 1rjwA 339 4.85e+01 b.35.1.2,c.2.1.1 97582,97583 1q9uA 130 5.09e+01 d.129.7.1 96314 1hyuA 521 5.09e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1np3A 338 5.21e+01 a.100.1.2,c.2.1.6 85946,85947 1p71A 94 5.23e+01 a.55.1.1 87840 1e46P 215 5.25e+01 2fua c.74.1.1 34984 1e49P 215 5.27e+01 2fua c.74.1.1 34981 1qnxA 209 5.27e+01 1qnxA d.111.1.1 40914 2b0cA 206 5.32e+01 1kx5B 102 5.48e+01 a.22.1.1 77594 1fstA 182 5.50e+01 1rhoA b.1.18.8 60008 1cb0A 283 5.50e+01 1cb0A c.56.2.1 33790 1j08A 226 5.50e+01 c.47.1.2,c.47.1.2 83855,83856 2bdwA 362 5.57e+01 1quqB 121 5.57e+01 1quqB b.40.4.3 25305 1tzyD 103 5.60e+01 a.22.1.1 107533 1p3gB 102 5.74e+01 a.22.1.1 94007 1vizA 240 5.80e+01 c.1.4.1 100784 1m73E 288 5.81e+01 c.56.2.1 91211 1rszA 289 5.82e+01 1nr9A 223 5.86e+01 d.177.1.1 86119 1hh4D 204 5.87e+01 b.1.18.8 61039 2fz5A 137 5.90e+01 1f1oA 431 5.95e+01 1f1oA a.127.1.1 19433 2hioD 103 5.99e+01 1aoiB a.22.1.1 16468 1y8aA 332 6.14e+01 2f4nA 273 6.27e+01 1c8tA 167 6.27e+01 1hfc d.92.1.11 40390 2reb 352 6.29e+01 2reb c.37.1.11,d.48.1.1 32282,38767 2recA 353 6.32e+01 2reb i.2.1.1 45879 1dzzP 215 6.36e+01 2fua c.74.1.1 34971 1dzvP 215 6.36e+01 2fua c.74.1.1 34972 1u94A 356 6.38e+01 c.37.1.11,d.48.1.1 107743,107744 1lldA 319 6.42e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1e48P 215 6.44e+01 2fua c.74.1.1 34974 1pxa 394 6.49e+01 1pbe c.3.1.2,d.16.1.2 30366,37897 1p3pB 102 6.63e+01 a.22.1.1 94058 1h7nA 340 6.69e+01 1b4kA c.1.10.3 60726 1h7oA 341 6.71e+01 c.1.10.3 60727 1ohlA 342 6.72e+01 c.1.10.3 87035 1dzwP 215 6.76e+01 2fua c.74.1.1 34978 1ps9A 671 6.82e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1lbqA 362 6.85e+01 c.92.1.1 77877 1j7gA 144 7.09e+01 c.110.1.1 84130 3hck 107 7.11e+01 1lckA d.93.1.1 40495 2blfA 373 7.13e+01 2bxrA 527 7.24e+01 1kr0A 273 7.27e+01 c.1.8.5 68845 1fsz 372 7.28e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1ju2A 536 7.46e+01 c.3.1.2,d.16.1.1 77169,77170 1vkzA 412 7.70e+01 b.84.2.1,c.30.1.1,d.142.1.2 108698,108699,108700 1vbfA 231 7.70e+01 c.66.1.7 108475 1mt0A 241 7.75e+01 c.37.1.12 85096 1xefA 241 7.79e+01 1sumB 235 7.80e+01 a.7.12.1 106025 1j04A 392 7.97e+01 c.67.1.3 90734 1h0cA 392 7.99e+01 c.67.1.3 83424 1gw0A 559 8.06e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1ylvA 342 8.12e+01 1b4kA c.1.10.3 29180 1iilE 220 8.53e+01 1cvsC b.1.1.4,b.1.1.4 62437,62438 2fdbP 220 8.53e+01 1w5eA 364 8.56e+01 1w5bA 364 8.65e+01 1dob 394 8.74e+01 1pbe c.3.1.2,d.16.1.2 30362,37893 1aw5 340 8.79e+01 1b4kA c.1.10.3 29181 1z5nA 242 8.79e+01 1jb3A 131 8.92e+01 1jc7A b.40.3.2 62833 1bxbA 387 8.94e+01 4xis c.1.15.3 29543