# List of top-scoring protein chains for T0342.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 1vkbA 161 7.68e-17 d.269.1.1 108643 2g0qA 173 5.05e-14 1xhsA 121 6.34e-13 1v30A 124 9.02e-09 1jroB 777 6.58e-01 d.41.1.1,d.133.1.1 67141,67142 1v58A 241 1.05e+00 c.47.1.9,d.17.3.1 108371,108372 1zba3 221 1.26e+00 1h6nA 484 1.27e+00 e.5.1.1 90623 2g2dA 193 2.64e+00 1yyeA 268 2.74e+00 1qkmA 255 2.84e+00 3erdA a.123.1.1 19309 1bas 154 2.92e+00 1bfg b.42.1.1 25488 1iilA 155 2.95e+00 1bfg b.42.1.1 62433 1bfb 147 3.07e+00 1bfg b.42.1.1 25490 1bfg 146 3.11e+00 1bfg b.42.1.1 25485 1t91A 207 3.47e+00 1h7kA 483 3.59e+00 e.5.1.1 90624 1bla 155 3.76e+00 1bfg b.42.1.1 25502 1m85A 484 3.81e+00 e.5.1.1 74578 1l2jA 271 3.82e+00 a.123.1.1 73505 1jzoA 216 4.08e+00 c.47.1.9,d.17.3.1 84267,84268 1jzdA 220 4.08e+00 c.47.1.9,d.17.3.1 84257,84258 1fcqA 350 4.20e+00 c.1.8.9 65006 1eejA 216 4.42e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1u3rA 241 4.63e+00 1vg1A 185 4.72e+00 c.37.1.8 108599 1ndeA 255 4.82e+00 a.123.1.1 80415 1vg8A 207 5.04e+00 c.37.1.8 108606 4fgf 146 5.07e+00 1bfg b.42.1.1 25486 1x76A 240 5.15e+00 1ev2A 132 5.42e+00 1bfg b.42.1.1 25493 3gpdG 334 5.44e+00 1dssG c.2.1.3,d.81.1.1 30029,39944 1qknA 255 6.62e+00 3erdA a.123.1.1 19310 1qqp3 220 7.16e+00 1qqp3 1e93A 484 7.34e+00 e.5.1.1 64802 2gv8A 447 7.57e+00 2b5wA 357 7.90e+00 1wpnA 188 7.90e+00 1vqwA 457 8.05e+00 2g19A 244 8.19e+00 1vhwA 253 8.33e+00 c.56.2.1 100706 2g1mA 246 8.41e+00 1qzyA 478 9.08e+00 a.4.5.25,d.127.1.1 96717,96718 1b6a 478 9.17e+00 1bn5 a.4.5.25,d.127.1.1 16223,41160 1yal 218 9.38e+00 1cs8A d.3.1.1 37025 1gxfA 492 9.99e+00 c.3.1.5,c.3.1.5,d.87.1.1 90527,90528,90529 1aogA 485 1.03e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1bff 129 1.03e+01 1bfg b.42.1.1 25489 1bzlA 486 1.03e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30521,30522,40192 2bfh 128 1.15e+01 1bfg b.42.1.1 25497 1zafA 238 1.21e+01 1krrA 203 1.23e+01 b.81.1.3 72899 2foyA 260 1.23e+01 1jv0A 260 1.24e+01 b.74.1.1 63303 1crm 260 1.32e+01 2cba b.74.1.1 27816 1txuA 273 1.33e+01 a.222.1.1 107439 1cjxA 357 1.33e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1ko6A 187 1.34e+01 b.119.1.1 77471 1mn2 357 1.34e+01 1arv a.93.1.1 18666 2cab 261 1.34e+01 2cba b.74.1.1 27906 1n08A 163 1.36e+01 b.43.5.1 79730 1yydA 357 1.39e+01 1mn1 357 1.40e+01 1arv a.93.1.1 18667 1bllE 488 1.49e+01 1lam c.50.1.1,c.56.5.3 33170,33833 2ewbA 486 1.50e+01 1i7fA 292 1.53e+01 1i7fA d.193.1.1 61888 1i2tA 61 1.54e+01 1i2tA a.144.1.1 61582 1lam 484 1.56e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1za6B 344 1.62e+01 2fvlA 324 1.73e+01 1b34A 119 1.80e+01 1d3bA b.38.1.1 24796 1ynfA 458 1.89e+01 1walA 345 1.89e+01 1cnzA c.77.1.1 35041 2b5vA 357 1.90e+01 1ndaA 491 1.92e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1ipd 345 1.92e+01 1cnzA c.77.1.1 35038 1fvpA 231 1.95e+01 1nfp c.1.16.2 29556 1gc9A 345 2.01e+01 1cnzA c.77.1.1 35037 1wpmA 309 2.02e+01 1v9eA 259 2.11e+01 b.74.1.1 100539 1v9iC 261 2.12e+01 b.74.1.1 100541 1xaa 345 2.20e+01 1cnzA c.77.1.1 35033 1l3wA 546 2.26e+01 b.1.6.1,b.1.6.1,b.1.6.1,b.1.6.1,b.1.6.1 73553,73554,73555,73556,73557 2fl7A 232 2.29e+01 1g2uA 345 2.37e+01 1cnzA c.77.1.1 35036 1dr8A 344 2.38e+01 1cnzA c.77.1.1 35051 1dpzA 349 2.39e+01 1cnzA c.77.1.1 35053 1osjA 345 2.39e+01 1cnzA c.77.1.1 35039 1dr0A 346 2.39e+01 1cnzA c.77.1.1 35045 1gc8A 345 2.39e+01 1cnzA c.77.1.1 35042 4gpd1 333 2.42e+01 1dssG 1gpdG 334 2.48e+01 1dssG c.2.1.3,d.81.1.1 30020,39935 1ywuA 149 2.63e+01 1tybE 319 2.65e+01 2ts1 c.26.1.1 31569 1yniA 458 2.67e+01 1uc2A 481 2.69e+01 d.261.1.1 99161 1xad 345 2.71e+01 1cnzA c.77.1.1 35055 1gadO 330 2.80e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1aec 218 2.81e+01 1cs8A d.3.1.1 37003 1vr6A 350 2.84e+01 1s7cA 331 2.86e+01 c.2.1.3,d.81.1.1 105346,105347 1nmrA 85 2.93e+01 a.144.1.1 91992 1gaeO 330 2.94e+01 1dssG c.2.1.3,d.81.1.1 29954,39869 1idm 343 2.94e+01 1cnzA c.77.1.1 35035 1eceA 358 2.97e+01 1eceA c.1.8.3 28813 1rzmA 338 3.07e+01 c.1.10.4 105137 1vrxA 358 3.13e+01 2ig2H 455 3.14e+01 1igtB b.1.1.1,b.1.1.2 19849,20953 1y4zB 512 3.28e+01 1vprA 374 3.29e+01 1ud3A 480 3.33e+01 b.71.1.1,c.1.8.1 88471,88472 1k66A 149 3.38e+01 c.23.1.1 90941 1oaoA 674 3.41e+01 e.26.1.2 86744 2aqwA 332 3.50e+01 1an7A 136 3.51e+01 1seiA d.140.1.1 41465 1fjgH 138 3.56e+01 1seiA d.140.1.1 41468 1ts9A 102 3.58e+01 1kopA 223 3.67e+01 2cba b.74.1.1 27966 1y5iB 512 3.72e+01 1ud2A 480 3.79e+01 b.71.1.1,c.1.8.1 88469,88470 1z93A 266 3.91e+01 1v37A 177 3.92e+01 1mcoH 428 4.00e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 20564,21469,21470,21471 2ftzA 284 4.11e+01 1gwcA 230 4.13e+01 a.45.1.1,c.47.1.5 70660,70661 2d8aA 348 4.15e+01 1oqoA 212 4.38e+01 b.1.1.2,b.1.1.2 87313,87314 1z97A 266 4.39e+01 1u5uA 374 4.44e+01 1l6xA 207 4.49e+01 b.1.1.2,b.1.1.2 73642,73643 1k72A 614 4.51e+01 a.102.1.2,b.2.2.2 84309,84310 2gj7A 227 4.52e+01 2fpbA 322 4.55e+01 1g87A 614 4.62e+01 a.102.1.2,b.2.2.2 83275,83276 1t83A 224 4.62e+01 b.1.1.2,b.1.1.2 106643,106644 1zba2 218 4.65e+01 1m2oB 190 4.73e+01 c.37.1.8 78485 2b0aA 186 4.75e+01 1urxA 282 4.80e+01 b.29.1.2 99837 1hw7A 255 4.84e+01 1i7fA d.193.1.1 61297 2ah6A 208 4.86e+01 1jqxA 311 4.88e+01 c.1.4.1 90902 1jyoA 130 4.95e+01 d.198.1.1 67483 1iisA 224 5.05e+01 1igtB b.1.1.2,b.1.1.2 62454,62455 1x87A 551 5.05e+01 2fvgA 340 5.17e+01 2gq1A 332 5.21e+01 1hzhH 457 5.53e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 61437,61438,61439,61440 1sefA 274 5.55e+01 b.82.1.11 105452 2fgyA 542 5.57e+01 2ba0A 229 5.78e+01 1tqhA 247 5.82e+01 c.69.1.29 107225 1bx0A 314 5.82e+01 1fnc b.43.4.2,c.25.1.1 25630,31520 1lnzA 342 5.83e+01 b.117.1.1,c.37.1.8 78112,78113 1dzrA 183 5.88e+01 1dzrA b.82.1.1 28076 1ihxA 333 5.90e+01 c.2.1.3,d.81.1.1 71211,71212 1i94H 138 5.98e+01 1seiA d.140.1.1 61999 1zxkA 98 6.00e+01 1dn2A 207 6.02e+01 1igtB b.1.1.2,b.1.1.2 21512,21513 1jr7A 311 6.02e+01 b.82.2.3 63255 1c8bA 371 6.08e+01 1c8bA c.56.1.2 59082 1jgnA 98 6.11e+01 a.144.1.1 84170 1jrbA 311 6.24e+01 c.1.4.1 90904 1cvsC 225 6.27e+01 1cvsC b.1.1.4,b.1.1.4 21726,21727 1gt6A 269 6.32e+01 c.69.1.17 76342 1emy 153 6.32e+01 1a6m a.1.1.2 15204 1yppA 286 6.37e+01 1wgjA b.40.5.1 25407 1fnd 314 6.44e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1tydE 319 6.46e+01 2ts1 c.26.1.1 31567 4ts1A 319 6.58e+01 2ts1 c.26.1.1 31565 1g9lA 144 6.61e+01 1g9lA a.144.1.1 60399 2gmyA 153 6.62e+01 1v0aA 178 6.64e+01 2bhgA 209 6.77e+01 1yw9A 369 6.78e+01 1tib 269 6.78e+01 3tgl c.69.1.17 34738 1b59A 370 6.88e+01 1bn5 a.4.5.25,d.127.1.1 16225,41162 1bx1A 314 6.97e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1bowA 159 7.00e+01 1bowA d.60.1.1 39528 2h39A 351 7.16e+01 2ah8A 236 7.16e+01 1fccA 206 7.16e+01 1igtB b.1.1.2,b.1.1.2 21524,21525 1o4yA 288 7.29e+01 b.29.1.2 92473 1frtC 205 7.29e+01 1igtB b.1.1.2,b.1.1.2 21544,21545 1f74A 293 7.34e+01 1nal3 c.1.10.1 29079 2fvoA 333 7.39e+01 1tyc 319 7.45e+01 2ts1 c.26.1.1 31568 1xjcA 169 7.47e+01 1adqA 206 7.50e+01 1igtB b.1.1.2,b.1.1.2 21518,21519 1rq0A 342 7.51e+01 e.38.1.1 105044 1jueA 311 7.51e+01 c.1.4.1 90910 1fc2D 224 7.51e+01 1igtB b.1.1.2,b.1.1.2 21516,21517 1frqA 314 7.52e+01 1fnc b.43.4.2,c.25.1.1 25632,31522 1e4kA 225 7.54e+01 1igtB b.1.1.2,b.1.1.2 21526,21527 1gpwA 253 7.59e+01 c.1.2.1 65460 1jubA 311 7.59e+01 c.1.4.1 90908 1iixA 224 7.61e+01 1igtB b.1.1.2,b.1.1.2 62462,62463 1h3uA 223 7.62e+01 b.1.1.2,b.1.1.2 76657,76658 1ufrA 181 7.63e+01 c.61.1.1 99354 1zxfA 155 7.69e+01 1cs8A 316 7.72e+01 1cs8A d.3.1.1 37065 1rxwA 336 7.74e+01 a.60.7.1,c.120.1.2 98059,98060 1evtC 225 7.75e+01 1cvsC b.1.1.4,b.1.1.4 21730,21731 1mp9A 198 7.75e+01 d.129.1.1,d.129.1.1 91385,91386 1frn 314 7.83e+01 1fnc b.43.4.2,c.25.1.1 25631,31521 1souA 194 7.83e+01 c.124.1.6 105858 2gacA 151 7.89e+01 1apyA d.153.1.5 42012 1z84A 351 8.06e+01 1odsA 318 8.07e+01 c.69.1.25 86877 1xi5J 114 8.10e+01 2bjiA 277 8.39e+01 1mioB 458 8.48e+01 1qguB c.92.2.3 35602 1n0sA 184 8.54e+01 b.60.1.1 91526 1eexA 554 8.60e+01 1dioA c.1.19.3 29650 1txoA 237 8.63e+01 1h6rA 236 8.68e+01 d.22.1.1 65683 1tyaE 319 8.69e+01 2ts1 c.26.1.1 31570 1y4gB 146 8.71e+01 1vh7A 265 8.88e+01 c.1.2.1 100646 1r9hA 135 8.88e+01 d.26.1.1 97260 1v6aA 332 8.99e+01