# List of top-scoring protein chains for t06-100-30-stride-ebghtl-scores 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 1wdjA 187 2.15e-01 1yk4A 52 3.63e-01 1weoA 93 1.00e+00 1q7lB 88 1.57e+00 1iro 54 2.09e+00 1rb9 g.41.5.1 45223 1vqqA 646 2.44e+00 2av5A 120 2.45e+00 1vq0A 302 2.71e+00 2fztA 79 2.79e+00 1zin 217 3.13e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1vhtA 218 3.53e+00 c.37.1.1 100700 1qzzA 374 3.72e+00 a.4.5.29,c.66.1.12 96719,96720 2cb5A 453 3.75e+00 3gcb d.3.1.1 37035 1lv7A 257 3.86e+00 c.37.1.20 78232 2f4mA 295 3.89e+00 1vp6A 138 4.00e+00 1u6tA 121 4.04e+00 1ucrA 78 4.51e+00 a.4.5.45 99188 1uz3A 102 4.64e+00 1fp1D 372 4.67e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1vkmA 297 4.71e+00 c.138.1.1 108670 1zaiA 363 4.84e+00 2a14A 263 4.88e+00 1u7eB 154 5.28e+00 1uu1A 335 5.37e+00 c.67.1.1 99993 1b7yB 785 5.47e+00 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1aa6 715 5.70e+00 2napA b.52.2.2,c.81.1.1 26916,35324 2bkkA 264 5.94e+00 1ykhA 108 6.02e+00 2basA 431 6.11e+00 1rlyA 60 6.63e+00 g.41.3.1 104988 1vphA 149 6.95e+00 1alu 186 7.02e+00 1alu a.26.1.1 16826 1z0sA 278 7.90e+00 2b8wA 328 8.01e+00 2fp1A 166 8.71e+00 1brfA 53 9.20e+00 1rb9 g.41.5.1 45236 1mz4A 137 9.46e+00 a.3.1.1 91496 1x1rA 178 9.60e+00 2etxA 209 1.01e+01 1ed1A 135 1.02e+01 1hiwA a.61.1.1 18130 2fe5A 94 1.04e+01 1rb9 53 1.08e+01 1rb9 g.41.5.1 45214 2cc0A 195 1.09e+01 1ukuA 102 1.17e+01 d.58.5.2 99533 1woyA 500 1.17e+01 1iznB 277 1.18e+01 e.43.1.2 83848 1dv1A 449 1.18e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1rdg 53 1.18e+01 1rb9 g.41.5.1 45221 1ufbA 127 1.20e+01 a.24.16.3 99331 2evrA 246 1.21e+01 1y1pA 342 1.25e+01 1sgwA 214 1.26e+01 c.37.1.12 105541 1q5dA 419 1.27e+01 a.104.1.1 95891 1xl7A 612 1.39e+01 2aa1B 146 1.43e+01 1wijA 140 1.48e+01 1ia8A 289 1.52e+01 1ia8A d.144.1.7 62112 1u5kA 244 1.59e+01 1xdzA 240 1.62e+01 1wgxA 73 1.62e+01 1rg8A 146 1.63e+01 1viaA 175 1.69e+01 c.37.1.2 100754 1hyeA 313 1.70e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1yua 122 1.75e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1x38A 602 1.76e+01 1fp0A 88 1.79e+01 1fp0A g.50.1.2 45361 1wolA 122 1.81e+01 1pzgA 331 1.82e+01 c.2.1.5,d.162.1.1 95425,95426 1ppjF 110 1.84e+01 f.27.1.1 104262 1w85A 368 1.87e+01 1ltqA 301 1.94e+01 c.108.1.9,c.37.1.1 78208,78209 1yf3A 259 1.98e+01 1y8qA 346 2.02e+01 1v54F 98 2.04e+01 g.41.5.3 100327 1vmfA 145 2.04e+01 1msk 331 2.12e+01 1msk d.173.1.1 42495 1mzgA 146 2.17e+01 d.224.1.1 79696 1nthA 458 2.18e+01 c.1.25.1 80730 1bfg 146 2.20e+01 1bfg b.42.1.1 25485 1gsa 316 2.21e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1nc5A 373 2.31e+01 a.102.1.6 85548 1rw1A 114 2.32e+01 1thtA 305 2.32e+01 1thtA c.69.1.13 34711 1xreA 217 2.36e+01 1cxzB 86 2.38e+01 1cxzB a.2.6.1 15705 1ix9A 205 2.39e+01 a.2.11.1,d.44.1.1 76899,76900 1ro2A 216 2.43e+01 d.264.1.2 97665 2a8eA 220 2.46e+01 1u24A 337 2.46e+01 1suwA 249 2.47e+01 e.52.1.1 106027 1epxA 370 2.52e+01 1fbaA c.1.10.1 29150 1lvaA 258 2.56e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1rjdA 334 2.61e+01 c.66.1.37 97558 2avuE 192 2.67e+01 1w3oA 216 2.69e+01 2axwA 134 2.71e+01 1ebfA 358 2.73e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1wmiA 90 2.74e+01 1si2A 149 2.77e+01 b.34.14.1 105569 1ee8A 266 2.82e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1zbqA 327 2.91e+01 2d00A 109 2.97e+01 1lucA 355 3.04e+01 1lucA c.1.16.1 29547 1lkoA 191 3.05e+01 a.25.1.1,g.41.5.1 78063,78064 1qxfA 66 3.05e+01 g.41.8.4 96527 1bea 127 3.09e+01 1bea a.52.1.2 17826 2cwxA 430 3.12e+01 1d8bA 81 3.17e+01 1d8bA a.60.8.1 18094 1aua 296 3.23e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1it2A 146 3.24e+01 a.1.1.2 66365 1hxn 219 3.26e+01 1hxn b.66.1.1 27529 2fnoA 248 3.32e+01 1rdqE 350 3.37e+01 d.144.1.7 97314 1ezwA 349 3.52e+01 1ezwA c.1.16.3 29558 1yxmA 303 3.53e+01 3daaA 277 3.66e+01 1daaA e.17.1.1 43272 1ut9A 609 3.66e+01 a.102.1.2,b.1.18.2 99912,99913 2carA 196 3.68e+01 1m0wA 491 3.78e+01 c.30.1.4,d.142.1.6 78363,78364 1j2zA 270 3.80e+01 b.81.1.1 90805 1nm2A 317 3.82e+01 c.19.1.1,d.58.23.1 80654,80655 1n9lA 109 3.82e+01 d.110.3.6 85468 1pmi 440 3.83e+01 1pmi b.82.1.3 28114 1uuqA 440 3.85e+01 c.1.8.3 100015 1p4xA 250 3.88e+01 a.4.5.28,a.4.5.28 87784,87785 2b3wA 168 3.94e+01 1wwtA 88 3.98e+01 1uekA 275 4.01e+01 d.14.1.5,d.58.26.5 88483,88484 1ro0A 216 4.01e+01 d.264.1.2 97664 1x74A 360 4.02e+01 1b5pA 385 4.04e+01 c.67.1.1 90403 1nh1A 330 4.08e+01 e.45.1.1 91871 1v6zA 228 4.15e+01 1jrrA 382 4.24e+01 e.1.1.1 63256 1zpdA 568 4.29e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1w07A 659 4.35e+01 2czcA 334 4.37e+01 1hx1B 114 4.37e+01 1hx1B a.7.7.1 61350 1oqcA 125 4.39e+01 a.24.15.1 87264 2fokA 579 4.44e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1tm9A 137 4.45e+01 a.225.1.1 107150 2d69A 430 4.47e+01 1vqoB 338 4.47e+01 1yz4A 160 4.56e+01 1o97D 320 4.62e+01 c.26.2.3,c.31.1.2 81233,81234 1in6A 334 4.62e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2es9A 115 4.62e+01 1dkmA 410 4.65e+01 1dklA c.60.1.2 34000 1s3eA 520 4.69e+01 c.3.1.2,d.16.1.5 98426,98427 1jmtA 104 4.70e+01 d.58.7.3 63180 2fflA 756 4.71e+01 1q74A 303 4.72e+01 c.134.1.1 96019 1in4A 334 4.74e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1g38A 393 4.77e+01 2admA c.66.1.27 60235 1sa3A 262 4.80e+01 c.52.1.23 105400 1xtqA 177 4.81e+01 1c75A 71 4.83e+01 451c a.3.1.1 15796 2ga9D 469 4.83e+01 2djkA 133 4.85e+01 1w4xA 542 4.92e+01 c.3.1.5,c.3.1.5 109171,109172 1np6A 174 4.98e+01 c.37.1.10 85954 1rqbA 539 5.04e+01 a.5.7.2,c.1.10.5 105057,105058 1xteA 154 5.04e+01 1w9yA 319 5.12e+01 1dkqA 410 5.17e+01 1dklA c.60.1.2 33998 1vmjA 151 5.21e+01 1t3yA 141 5.30e+01 1k7wA 468 5.30e+01 a.127.1.1 72130 1f00I 282 5.30e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1uc8A 280 5.31e+01 c.30.1.6,d.142.1.7 99165,99166 1yzxA 226 5.32e+01 1zu4A 320 5.32e+01 2ajgA 196 5.39e+01 1ky3A 182 5.44e+01 c.37.1.8 73193 1wer 334 5.45e+01 1wer a.116.1.2 19108 1o04A 500 5.47e+01 c.82.1.1 86508 1xszA 356 5.50e+01 1pl4A 198 5.54e+01 a.2.11.1,d.44.1.1 94854,94855 1oaoC 729 5.55e+01 e.26.1.3 86746 1oe4A 247 5.69e+01 c.18.1.3 86895 1qksA 567 5.71e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1yhvA 297 5.74e+01 1kzfA 230 5.76e+01 d.108.1.3 73354 1ixh 321 5.78e+01 1ixh c.94.1.1 35761 2cbuA 468 5.88e+01 1to6A 371 5.91e+01 c.141.1.1 107170 1t7vA 278 6.00e+01 1x31D 99 6.01e+01 1jqlB 140 6.02e+01 c.37.1.20 63234 1v5dA 386 6.07e+01 1cpcA 162 6.11e+01 1cpcA a.1.1.3 15643 2cobA 70 6.11e+01 1yzfA 195 6.12e+01 1dvpA 220 6.19e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1tjvA 474 6.21e+01 a.127.1.1 107054 1mgtA 174 6.26e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1uh4A 637 6.32e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1i4wA 353 6.42e+01 c.66.1.24 66028 1q5nA 454 6.46e+01 a.127.1.1 95901 1ub4A 110 6.47e+01 b.34.6.2 88399 1t06A 235 6.51e+01 a.118.1.17 106194 1sfxA 109 6.58e+01 a.4.5.50 105505 2ccyA 128 6.59e+01 2ccyA a.24.3.2 16544 1cmcA 104 6.59e+01 1cmbA a.43.1.5 17462 1ovlA 271 6.65e+01 a.123.1.1 87455 1r53A 382 6.66e+01 d.258.1.1 97063 1gadO 330 6.76e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1uj8A 77 6.81e+01 1t0iA 191 6.92e+01 c.23.5.4 106209 1ly1A 181 7.20e+01 c.37.1.1 74334 1kwgA 645 7.21e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1i60A 278 7.23e+01 c.1.15.4 71118 1gp6A 356 7.24e+01 b.82.2.1 65441 2bw3A 534 7.35e+01 1jyoE 105 7.41e+01 d.184.1.2 67487 2ex3B 264 7.41e+01 1oywA 523 7.42e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1ls9A 91 7.43e+01 a.3.1.1 78177 1g291 372 7.44e+01 1g291 1ow1A 195 7.52e+01 b.131.1.3 93625 1ynbA 173 7.53e+01 1ekeA 230 7.54e+01 1ekeA c.55.3.1 33572 1vrmA 325 7.59e+01 1wixA 164 7.62e+01 1se0A 116 7.66e+01 g.52.1.1 98814 1x75A 132 7.90e+01 1dfuP 94 7.93e+01 1dfuP b.53.1.1 26936 2fdrA 229 8.06e+01 1ia9A 280 8.09e+01 1ia9A d.144.1.5 62113 1z7lA 276 8.15e+01 1t4aA 84 8.19e+01 d.284.1.1 106404 1e5dA 402 8.23e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1jr8A 117 8.28e+01 a.24.15.1 67115 1a76 326 8.32e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1qs1A 462 8.32e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1u2eA 289 8.57e+01 2ex4A 241 8.59e+01 1mldA 314 8.73e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 6rxn 46 8.81e+01 1rb9 g.41.5.1 45222 1jdlA 121 8.90e+01 a.3.1.1 66557 2a8yA 270 8.92e+01 1n13A 52 8.92e+01 d.155.1.2 85248 1hl2A 297 8.95e+01 c.1.10.1 83581 1txnA 328 8.96e+01 1hs6A 611 8.98e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235