# List of top-scoring protein chains for t06-100-30-bys-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 1bg2 325 1.35e-54 1bg2 c.37.1.9 32189 1vfvA 366 8.01e-50 c.37.1.9 108592 1x88A 359 9.16e-50 1f9vA 347 2.99e-47 1bg2 c.37.1.9 59745 1ry6A 360 7.01e-44 c.37.1.9 98090 1odfA 290 2.47e-01 c.37.1.6 92782 1d2mA 665 2.48e-01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1j8mF 297 4.66e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1c4oA 664 5.07e-01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1zk7A 467 7.07e-01 2cdnA 201 7.36e-01 1u9iA 519 7.85e-01 1tljA 213 8.68e-01 d.282.1.1 107126 1w85A 368 1.07e+00 1gvnB 287 1.13e+00 c.37.1.21 76354 1wf3A 301 1.38e+00 2bjvA 265 1.60e+00 1wmhA 89 1.69e+00 1w7jA 795 1.82e+00 1k3yA 221 1.88e+00 a.45.1.1,c.47.1.5 77245,77246 2azeA 155 1.91e+00 2a5yB 549 2.05e+00 1a8s 273 2.26e+00 1brt c.69.1.12 34710 1ex2A 189 2.36e+00 1ex2A c.51.4.2 33225 1jx4A 352 2.48e+00 d.240.1.1,e.8.1.7 90378,90379 1bouB 302 2.60e+00 1bouB c.56.6.1 33859 1q5dA 419 2.78e+00 a.104.1.1 95891 1g291 372 2.95e+00 1g291 1g6hA 257 3.00e+00 1gajA c.37.1.12 60318 2ch4A 320 3.03e+00 2napA 723 3.28e+00 2napA b.52.2.2,c.81.1.1 26926,35334 1wdtA 665 3.59e+00 1ls1A 295 3.69e+00 a.24.13.1,c.37.1.10 78170,78171 1lv7A 257 3.99e+00 c.37.1.20 78232 2ghpA 292 4.11e+00 2aiqA 231 4.13e+00 1bueA 265 4.16e+00 1btl e.3.1.1 42727 1xx1A 285 4.26e+00 1f60A 458 4.39e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1vns 609 4.82e+00 1vns a.111.1.3 19061 1cfzA 162 5.00e+00 1cfzA c.56.1.1 33754 1thtA 305 5.03e+00 1thtA c.69.1.13 34711 1ohtA 215 5.14e+00 d.118.1.1 87036 1zd3A 555 5.22e+00 1d4xG 126 5.41e+00 1d0nA d.109.1.1 59109 1tmxA 293 5.44e+00 1xw8A 252 5.69e+00 1g8kA 825 5.71e+00 1g8jA b.52.2.2,c.81.1.1 26920,35328 2b8tA 223 6.13e+00 1s7kA 182 6.30e+00 2fqxA 318 6.70e+00 1dofA 403 6.87e+00 1c3cA a.127.1.1 19429 1dmhA 311 7.03e+00 1dmhA b.3.6.1 22633 1zj6A 187 7.19e+00 1vf1A 229 7.35e+00 2f4nA 273 7.46e+00 1i6pA 220 8.29e+00 1ddzA c.53.2.1 61848 1xkwA 665 8.56e+00 1cqmA 101 8.64e+00 1ris d.58.14.1 39321 1ihuA 589 9.05e+00 c.37.1.10,c.37.1.10 62394,62395 1knqA 175 9.28e+00 c.37.1.17 72786 2g40A 224 9.43e+00 1u2eA 289 9.45e+00 1w36B 1180 9.50e+00 1yrbA 262 9.89e+00 1qf9A 194 1.00e+01 1zin c.37.1.1 31848 1wyzA 242 1.02e+01 1gesA 450 1.02e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1vfrA 218 1.03e+01 1vfrA d.90.1.1 40247 1i19A 561 1.10e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1tueA 212 1.11e+01 c.37.1.20 107323 1mr3F 181 1.15e+01 c.37.1.8 79422 1u94A 356 1.17e+01 c.37.1.11,d.48.1.1 107743,107744 1sq5A 308 1.18e+01 c.37.1.6 105882 1qdeA 224 1.25e+01 1qvaA c.37.1.19 32410 1j1iA 296 1.31e+01 c.69.1.10 83977 2c78A 405 1.38e+01 2pia 321 1.44e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1l7aA 318 1.49e+01 c.69.1.25 77772 1w9iA 770 1.51e+01 1gadO 330 1.53e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1f7sA 139 1.57e+01 1cof d.109.1.2 40857 2ajrA 331 1.59e+01 1nd4A 264 1.62e+01 d.144.1.6 91815 1vf8A 377 1.64e+01 2db3A 434 1.65e+01 1xx6A 191 1.65e+01 2fsrA 195 1.66e+01 1nv8A 284 1.71e+01 c.66.1.30 86224 2b67A 204 1.74e+01 1u0jA 267 1.77e+01 c.37.1.20 107546 1y14A 187 1.78e+01 1u4nA 310 1.83e+01 1g8pA 350 1.87e+01 1g8pA c.37.1.20 60376 2fpmA 322 1.89e+01 1fyeA 229 1.91e+01 1fyeA c.23.16.4 31477 2cu5A 129 1.95e+01 2d2eA 250 1.97e+01 1ifrA 121 1.99e+01 b.1.16.1 71203 1bif 469 2.00e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1h6kZ 98 2.05e+01 d.58.7.1 60686 1fnnA 389 2.07e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 2fuqA 747 2.08e+01 1xvaA 292 2.27e+01 1xvaA c.66.1.5 34183 1tg7A 971 2.30e+01 2fytA 340 2.31e+01 1q0uA 219 2.31e+01 c.37.1.19 95512 1wn5A 130 2.34e+01 1xewY 172 2.39e+01 1x0pA 143 2.47e+01 1tzyB 126 2.48e+01 a.22.1.1 107531 1va4A 279 2.48e+01 c.69.1.12 108458 1am2 199 2.50e+01 1am2 b.86.1.2 28381 1uxtA 501 2.52e+01 c.82.1.1 108125 1z0jA 170 2.57e+01 1p8xA 344 2.61e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1ye8A 178 2.62e+01 2cdcA 366 2.63e+01 2cvhA 220 2.64e+01 2a1rA 430 2.69e+01 1zm7A 230 2.72e+01 1sfp 114 2.73e+01 1sfp b.23.1.1 23895 1lam 484 2.76e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2akaB 299 2.77e+01 1z5zA 271 2.79e+01 4tmkA 213 2.83e+01 5tmpA c.37.1.1 31930 1r2rA 248 2.84e+01 c.1.1.1 96875 2fnaA 357 2.85e+01 1nh2B 53 2.88e+01 a.32.1.1 91874 1xrjA 261 2.93e+01 2bmaA 470 2.95e+01 1dmgA 225 2.96e+01 1dmgA c.22.1.1 31036 2b7kA 200 2.97e+01 1wi6A 88 2.99e+01 2fpeA 62 3.05e+01 1tp9A 162 3.11e+01 2f1fA 164 3.14e+01 1q5xA 161 3.19e+01 c.8.7.1 95947 1zu4A 320 3.24e+01 1h65A 270 3.24e+01 c.37.1.8 65640 2c07A 285 3.25e+01 1rq2A 382 3.27e+01 c.32.1.1,d.79.2.1 105048,105049 1uj2A 252 3.27e+01 c.37.1.6 99452 1fjhA 257 3.36e+01 1fjhB c.2.1.2 29870 2aq4A 434 3.40e+01 2dg5B 190 3.42e+01 2cbzA 237 3.43e+01 1e9rA 437 3.43e+01 c.37.1.11 64827 1i58A 189 3.45e+01 1b3qA d.122.1.3 61773 1n7kA 234 3.46e+01 c.1.10.1 85374 2bycA 137 3.50e+01 1ivyA 452 3.51e+01 1ivyA c.69.1.5 34654 1zd9A 188 3.52e+01 1epwA 1290 3.57e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1z47A 355 3.60e+01 1wznA 252 3.61e+01 1nn5A 215 3.68e+01 c.37.1.1 85892 1vyiA 112 3.76e+01 2atrA 138 3.79e+01 1qksA 567 3.84e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1ybdA 239 3.88e+01 1txkA 498 3.94e+01 b.1.18.2,b.30.5.9 107425,107426 1in4A 334 3.95e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1olmA 403 3.95e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1ucrA 78 4.02e+01 a.4.5.45 99188 1o20A 427 4.04e+01 c.82.1.1 86556 1e58A 249 4.06e+01 1qhfA c.60.1.1 59262 1l7lA 121 4.09e+01 b.18.1.16 77790 1vjeA 166 4.12e+01 d.185.1.2 100807 1p9gA 41 4.14e+01 g.3.1.1 104091 1fviA 297 4.18e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 1euhA 475 4.25e+01 1euhA c.82.1.1 35369 1i6aA 219 4.27e+01 c.94.1.1 61827 1yvoA 172 4.30e+01 1xjcA 169 4.38e+01 1m33A 258 4.46e+01 c.69.1.26 78514 1nmoA 247 4.47e+01 c.135.1.1 91980 1oi2A 366 4.51e+01 c.119.1.2 103802 1o5xA 248 4.52e+01 c.1.1.1 92528 1vraB 215 4.59e+01 1yz4A 160 4.59e+01 1pmi 440 4.63e+01 1pmi b.82.1.3 28114 1xdpA 687 4.66e+01 1uptA 171 4.76e+01 c.37.1.8 99767 1j5sA 463 4.81e+01 c.1.9.8 71580 1w44A 331 4.91e+01 1jflA 228 4.92e+01 c.78.2.1,c.78.2.1 71656,71657 1f2tA 149 4.92e+01 1f2tA c.37.1.12 32373 1r9cA 139 4.96e+01 d.32.1.2 97255 2ez9A 603 4.96e+01 2a9sA 171 4.96e+01 1ryqA 69 4.99e+01 g.41.9.3 105126 2ahqA 76 5.00e+01 2bkyX 89 5.02e+01 1eu1A 780 5.06e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1fuiA 591 5.07e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1apyB 141 5.11e+01 1apyB 1dciA 275 5.17e+01 1dciA c.14.1.3 30918 1jb0D 138 5.17e+01 1jb0D d.187.1.1 62823 2b8wA 328 5.18e+01 1nijA 318 5.18e+01 c.37.1.10,d.237.1.1 85741,85742 1x38A 602 5.20e+01 2g2cA 167 5.21e+01 1ka2A 499 5.21e+01 d.92.1.5 77305 1n9lA 109 5.24e+01 d.110.3.6 85468 1a8rA 221 5.24e+01 1a8rA d.96.1.1 40587 1rl6A 177 5.25e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1jvwA 167 5.32e+01 d.26.1.1 71907 1zmdA 474 5.34e+01 1z94A 147 5.35e+01 1n7oA 721 5.39e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1ltqA 301 5.42e+01 c.108.1.9,c.37.1.1 78208,78209 1qtnA 164 5.44e+01 1pauA c.17.1.1 30999 1csn 298 5.51e+01 1csn d.144.1.7 41664 1v8hA 107 5.53e+01 1ooyA 481 5.58e+01 c.124.1.3,c.124.1.2 93388,93389 1q77A 138 5.58e+01 c.26.2.4 96023 2fhzA 109 5.68e+01 1yj1A 76 5.75e+01 1a8q 274 5.75e+01 1brt c.69.1.12 34702 1wb4A 297 5.83e+01 1qzmA 94 5.83e+01 c.37.1.20 96651 1vhtA 218 5.91e+01 c.37.1.1 100700 1nrjB 218 5.91e+01 c.37.1.8 86125 1pzgA 331 5.98e+01 c.2.1.5,d.162.1.1 95425,95426 1k3sA 113 6.00e+01 d.198.1.1 68120 2bwvA 440 6.06e+01 2ew8A 249 6.08e+01 1m4jA 142 6.13e+01 d.109.1.2 78602 1viaA 175 6.15e+01 c.37.1.2 100754 1zc6A 305 6.16e+01 1dbhA 354 6.22e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1svmA 377 6.23e+01 1mijA 152 6.25e+01 a.4.1.1 79150 1ua4A 455 6.38e+01 c.72.1.3 99128 1tzfA 259 6.40e+01 c.68.1.13 107476 1sheA 103 6.40e+01 d.274.1.1 105551 1in6A 334 6.45e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1n0xH 230 6.47e+01 b.1.1.1,b.1.1.2 91528,91529 1g2rA 100 6.48e+01 1g2rA d.192.1.1 60231 1xteA 154 6.51e+01 1kr4A 125 6.53e+01 d.58.5.2 72889 1hd2A 161 6.57e+01 c.47.1.10 60962 1vecA 206 6.59e+01 c.37.1.19 100575 1ujnA 348 6.61e+01 e.22.1.1 99460 1pvgA 418 6.62e+01 d.14.1.3,d.122.1.2 95161,95162 1xd8A 289 6.67e+01 1z4vA 532 6.69e+01 1o6dA 163 6.91e+01 c.116.1.3 92567 1rvkA 382 6.96e+01 c.1.11.2,d.54.1.1 97928,97929 1w0hA 204 6.99e+01 1yy6A 155 6.99e+01 2g39A 497 7.01e+01 1g8eA 116 7.21e+01 1g8eA a.145.1.1 60346 1yqtA 538 7.24e+01 1m3sA 186 7.25e+01 c.80.1.3 78573 1rdqE 350 7.27e+01 d.144.1.7 97314 1k7kA 221 7.31e+01 c.51.4.1 72104 1upaA 573 7.39e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1v25A 541 7.41e+01 e.23.1.1 108275 2ccjA 205 7.41e+01 1eswA 500 7.44e+01 1cwyA c.1.8.1 59500 1cipA 353 7.44e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1mkyA 439 7.46e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1nw3A 416 7.48e+01 c.66.1.31 86288 1q6hA 224 7.53e+01 d.26.1.1 95975 1l2tA 235 7.53e+01 c.37.1.12 73514 1cb8A 678 7.57e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2f5tX 233 7.57e+01 1qx4A 274 7.64e+01 b.43.4.2,c.25.1.1 104624,104625 1z06A 189 7.74e+01 2afbA 351 7.77e+01 1wc3A 219 7.83e+01 1idk 359 7.86e+01 1qcxA b.80.1.2 28025 1tib 269 7.88e+01 3tgl c.69.1.17 34738 1xqwA 293 7.90e+01 2gdjA 264 7.91e+01 1ehiA 377 7.92e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1nf2A 268 8.07e+01 c.108.1.10 91849 1v97A 1332 8.07e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1vmaA 306 8.10e+01 a.24.13.1,c.37.1.10 108887,108888 1k0iA 394 8.13e+01 c.3.1.2,d.16.1.2 67942,67943 1ykjA 394 8.22e+01 1eo6A 117 8.25e+01 1eo6A d.15.1.3 37609 1rypB 250 8.26e+01 1rypB d.153.1.4 41933 1s3eA 520 8.27e+01 c.3.1.2,d.16.1.5 98426,98427 1ntvA 152 8.29e+01 b.55.1.2 86168 1xvwA 160 8.37e+01 1rreA 200 8.46e+01 d.14.1.10 97791 1fg7A 356 8.47e+01 1gewA c.67.1.1 59819 1e19A 314 8.48e+01 1b7bA c.73.1.1 34967 1xkpC 143 8.49e+01 2gsq 202 8.52e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1ib8A 164 8.52e+01 b.38.2.1,d.52.4.1 71168,71169 2ao9A 155 8.59e+01 2c2xA 281 8.61e+01 1ky3A 182 8.66e+01 c.37.1.8 73193 2ac3A 316 8.66e+01 1z6nA 167 8.67e+01 1qfjA 232 8.70e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1kshA 186 8.71e+01 c.37.1.8 72914 1f5nA 592 8.72e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2bcgG 453 8.72e+01 1eg5A 384 8.74e+01 1ecxA c.67.1.3 34429 1q7zA 566 8.76e+01 c.1.21.2,c.1.26.1 96090,96091 1epuA 591 8.77e+01 1dn1A e.25.1.1 43358 2fojA 155 8.88e+01 1spxA 278 8.89e+01 c.2.1.2 98958 2bbsA 290 8.98e+01