# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 2fe5A 94 1.41e-16 1g9oA 91 4.94e-16 1pdr b.36.1.1 60400 2fneA 117 8.55e-16 2fcfA 103 1.03e-15 1tp5A 119 1.42e-15 1be9A 119 2.45e-15 1pdr b.36.1.1 24774 1qavA 90 2.63e-15 1qauA b.36.1.1 24777 2h2bA 107 2.90e-14 1n7eA 97 3.22e-14 b.36.1.1 91691 1ihjA 98 5.57e-14 1pdr b.36.1.1 62382 1q3oA 109 6.15e-14 b.36.1.1 95700 1n7fA 97 6.66e-14 b.36.1.1 91692 1l6oA 95 1.53e-13 b.36.1.1 84534 2f0aA 98 2.78e-13 1mfgA 95 7.94e-13 b.36.1.1 79043 1kwaA 88 8.87e-13 1kwaA b.36.1.1 24772 2h3lA 103 8.96e-13 1qauA 112 1.40e-12 1qauA b.36.1.1 24779 1nf3C 128 1.43e-12 b.36.1.1 85596 2f5yA 91 2.18e-12 1wf7A 103 2.20e-12 1v5lA 103 1.14e-11 b.36.1.1 108378 1nteA 82 1.27e-10 b.36.1.1 86163 1r6jA 82 3.09e-10 b.36.1.1 97151 1fc6A 388 4.68e-07 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 2.19e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 6.04e-06 1y8tA 324 7.81e-05 1sotA 320 4.00e-03 b.36.1.4,b.47.1.1 105852,105853 1zn8A 180 1.27e-02 1qb7A 236 7.23e-02 1qb7A c.61.1.1 34087 1fxlA 167 2.99e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1db3A 372 6.59e-01 1db3A c.2.1.2 29813 1g2qA 187 6.93e-01 c.61.1.1 65117 1yg9A 330 7.78e-01 1q52A 314 7.94e-01 c.14.1.3 95846 1xx6A 191 8.61e-01 1wpgA 994 1.31e+00 1yjmA 110 1.38e+00 1w30A 201 1.53e+00 1ad3A 452 1.63e+00 1ad3A c.82.1.1 35335 1o6dA 163 1.86e+00 c.116.1.3 92567 1cliA 345 1.90e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1fdr 248 1.96e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1l1qA 186 2.03e+00 c.61.1.1 77653 2fvgA 340 2.10e+00 1t6t1 118 2.11e+00 1se8A 301 2.31e+00 b.40.4.3 105448 1su4A 994 2.43e+00 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1bx4A 345 2.47e+00 1bx4A c.72.1.1 34935 1n6aA 259 2.48e+00 b.76.2.1,b.85.7.1 80121,80122 1y0bA 197 2.60e+00 1f3z 161 2.69e+00 1gpr b.84.3.1 28273 1x3mA 415 2.78e+00 1eulA 994 2.89e+00 1eulA 2f69A 261 3.09e+00 1r13A 148 3.40e+00 d.169.1.1,h.1.1.1 96782,96783 1mkmA 249 3.83e+00 a.4.5.33,d.110.2.2 79242,79243 2brfA 110 3.94e+00 1fm0E 150 4.19e+00 1fmaE d.41.5.1 38629 1vchA 175 4.51e+00 1fr3A 67 5.36e+00 1fr3A b.40.6.1 25436 1opr 213 6.52e+00 1opr c.61.1.1 34091 1lh0A 213 6.65e+00 c.61.1.1 73896 1h72C 296 6.80e+00 d.14.1.5,d.58.26.1 60712,60713 2bw3A 534 7.07e+00 2f9dA 125 7.51e+00 1uc2A 481 7.89e+00 d.261.1.1 99161 1fwkA 296 8.32e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1cq3A 233 8.43e+00 1cq3A b.27.1.1 23923 1xmrA 243 9.14e+00 1rutX 188 1.02e+01 1a8y 367 1.03e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1ti6A 875 1.05e+01 b.52.2.2,c.81.1.1 106974,106975 2b8tA 223 1.05e+01 2cwaA 263 1.05e+01 1hzdA 272 1.08e+01 c.14.1.3 65969 2agcA 162 1.10e+01 1ecfA 504 1.10e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ltlA 279 1.15e+01 b.40.4.11 84701 2c5qA 240 1.16e+01 1f20A 435 1.19e+01 b.43.4.1,c.25.1.4 64932,64933 1vdmA 153 1.24e+01 1gpr 162 1.26e+01 1gpr b.84.3.1 28267 2bnjA 303 1.27e+01 1vheA 373 1.28e+01 b.49.3.1,c.56.5.4 100669,100670 1h3gA 601 1.30e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1r31A 428 1.41e+01 d.58.20.1,d.179.1.1 96897,96898 1g57A 217 1.44e+01 1g57A d.115.1.2 60253 1nonA 179 1.45e+01 c.61.1.1 103868 1fsgA 233 1.46e+01 1qk3A c.61.1.1 34029 1xznA 179 1.48e+01 1un8A 552 1.50e+01 c.119.1.2,a.208.1.1 103806,99661 1w94A 156 1.50e+01 2gm5A 139 1.51e+01 1evfA 264 1.53e+01 1bkpA d.117.1.1 40932 2g8oA 264 1.54e+01 1zh5A 195 1.56e+01 1qqqA 264 1.57e+01 1bkpA d.117.1.1 40931 2g8mA 264 1.59e+01 2f4wA 187 1.59e+01 1zkkA 167 1.59e+01 2bsyA 278 1.59e+01 1tllA 688 1.62e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1iw7C 1119 1.69e+01 e.29.1.1 71474 1o57A 291 1.72e+01 a.4.5.40,c.61.1.1 92483,92484 1dmgA 225 1.73e+01 1dmgA c.22.1.1 31036 2bh8A 101 1.77e+01 1kw4A 89 1.80e+01 a.60.1.2 73077 1wd5A 208 1.81e+01 1l0bA 229 1.82e+01 c.15.1.3,c.15.1.3 73391,73392 1uh5A 329 1.85e+01 c.2.1.2 107840 1h65A 270 1.88e+01 c.37.1.8 65640 2d4pA 141 1.96e+01 1hvyA 288 1.98e+01 1bkpA d.117.1.1 41049 1rwzA 245 2.02e+01 d.131.1.2,d.131.1.2 98005,98006 1cl1A 395 2.05e+01 1cl2A c.67.1.3 34395 1o63A 219 2.07e+01 c.94.1.1 92540 1u9yA 284 2.07e+01 2ptd 298 2.08e+01 2plc c.1.18.2 29605 1vraB 215 2.13e+01 1ftkA 279 2.14e+01 1gr2A c.94.1.1 35819 2bgiA 272 2.16e+01 2cq2A 114 2.21e+01 1a8vA 121 2.30e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 2iu4A 336 2.31e+01 2aamA 309 2.31e+01 1vkmA 297 2.43e+01 c.138.1.1 108670 1a44 185 2.45e+01 1a44 b.17.1.1 23704 1i1wA 303 2.48e+01 c.1.8.3 76732 2a6hC 1119 2.49e+01 2cu5A 129 2.49e+01 1q3iA 214 2.53e+01 d.220.1.1 104524 1hw7A 255 2.54e+01 1i7fA d.193.1.1 61297 1hgxA 183 2.56e+01 1tc1A c.61.1.1 34027 1wrvA 308 2.65e+01 1vj0A 380 2.66e+01 b.35.1.2,c.2.1.1 100786,100787 1aac 105 2.69e+01 1aac b.6.1.1 22838 1qzzA 374 2.75e+01 a.4.5.29,c.66.1.12 96719,96720 1sfdA 105 2.75e+01 b.6.1.1 105480 1bxaA 105 2.77e+01 1aac b.6.1.1 22839 1lnzA 342 2.81e+01 b.117.1.1,c.37.1.8 78112,78113 1yemA 179 2.81e+01 2bhoA 130 2.83e+01 2c1lA 358 2.96e+01 1fxrA 64 3.01e+01 1fxd d.58.1.4 38993 2bsjA 133 3.07e+01 1a8p 258 3.07e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1y7lA 316 3.10e+01 1poiA 317 3.13e+01 1poiA c.124.1.2 34153 2ghpA 292 3.18e+01 1eceA 358 3.23e+01 1eceA c.1.8.3 28813 2cw8A 537 3.27e+01 1wnfA 328 3.27e+01 1r62A 160 3.29e+01 d.122.1.3 104816 2adcA 229 3.33e+01 1wlsA 328 3.34e+01 1lw6I 64 3.39e+01 d.40.1.1 74294 1a62 130 3.39e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 2affA 120 3.45e+01 1oroA 213 3.46e+01 1opr c.61.1.1 34093 1vpqA 273 3.46e+01 1yb3A 175 3.53e+01 1ypvA 313 3.58e+01 1oi7A 288 3.61e+01 c.2.1.8,c.23.4.1 87049,87050 1c9oA 66 3.62e+01 1mjc b.40.4.5 25325 1dg6A 191 3.62e+01 1d4vB b.22.1.1 23883 1g7sA 594 3.67e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2f51A 118 3.68e+01 1bg4 302 3.69e+01 1taxA c.1.8.3 28806 1jmuB 666 3.69e+01 1tzfA 259 3.80e+01 c.68.1.13 107476 1lvoA 302 3.88e+01 b.47.1.4 74284 1rpxA 230 3.88e+01 1rpxA c.1.2.2 28536 1id2A 106 3.89e+01 1aac b.6.1.1 62288 2fe7A 166 3.93e+01 2az4A 429 3.93e+01 1o5oA 221 3.94e+01 c.61.1.1 92509 1sflA 238 3.95e+01 1yloA 348 3.96e+01 1zq9A 285 4.00e+01 2ampA 304 4.00e+01 1t9fA 187 4.05e+01 b.42.6.1 106710 1ycoA 279 4.07e+01 2bshA 125 4.08e+01 1wxxA 382 4.10e+01 1ta3B 303 4.10e+01 c.1.8.3 106732 1sv6A 269 4.10e+01 d.177.1.1 106043 1to2I 64 4.12e+01 3aprE 325 4.14e+01 2er7E b.50.1.2 26820 2gwnA 452 4.16e+01 1xdnA 277 4.21e+01 1bi5A 389 4.21e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 2b4aA 138 4.21e+01 2fxqA 264 4.25e+01 2d8aA 348 4.28e+01 1koe 172 4.32e+01 1koe d.169.1.5 42448 1xm7A 195 4.38e+01 2bkfA 87 4.43e+01 1ifyA 49 4.44e+01 a.5.2.1 71207 1yqfA 203 4.47e+01 1wvhA 134 4.49e+01 1yioA 208 4.50e+01 1ugmA 125 4.52e+01 d.15.1.3 107827 1zsyA 357 4.57e+01 1sw5A 275 4.58e+01 c.94.1.1 106069 2c0cA 362 4.74e+01 1cozA 129 4.76e+01 1cozA c.26.1.2 31598 1xv5A 401 4.80e+01 1vhxA 150 4.83e+01 c.55.3.8 100712 2apr 325 4.83e+01 2er7E b.50.1.2 26819 2aeeA 211 4.89e+01 1oq1A 223 4.89e+01 b.29.1.17 93408 2anuA 255 4.89e+01 1jvnA 555 4.91e+01 c.1.2.1,c.23.16.1 67355,67356 1cjbA 231 4.97e+01 1qk3A c.61.1.1 34079 1xfoA 357 4.97e+01 1mvwB 145 4.99e+01 i.15.1.1 79524 1yz7A 188 5.01e+01 1vcaA 202 5.09e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1y791 680 5.14e+01 1g8aA 227 5.16e+01 c.66.1.3 90506 1ym5A 300 5.16e+01 1wvqA 167 5.19e+01 1rlhA 173 5.23e+01 d.256.1.1 97646 1l7bA 92 5.25e+01 c.15.1.2 91053 1w78A 422 5.28e+01 1mqiA 263 5.29e+01 c.94.1.1 91398 1gg4A 452 5.29e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1n0qA 93 5.30e+01 k.37.1.1 79754 1wexA 104 5.53e+01 1uzcA 71 5.56e+01 a.159.2.1 100222 1y0yA 353 5.56e+01 1e9xA 455 5.58e+01 1ea1A a.104.1.1 18969 1behA 187 5.60e+01 1a44 b.17.1.1 23700 2ckiA 262 5.62e+01 1nm1G 125 5.62e+01 d.109.1.1 80653 1t44G 147 5.62e+01 d.109.1.1 106395 1jnyA 435 5.64e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1xxqA 161 5.69e+01 1htrB 329 5.70e+01 1smrA 1kmvA 186 5.78e+01 c.71.1.1 72757 1m65A 245 5.84e+01 c.6.3.1 84847 1ojhA 65 5.85e+01 a.214.1.1 103976 1e5xA 486 5.87e+01 c.79.1.1 59283 1g6sA 427 5.89e+01 1eps d.68.2.2 39584 1odkA 235 5.94e+01 c.56.2.1 86863 1scuA 288 5.95e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1dekA 241 6.04e+01 1dekA c.37.1.1 31842 1sfjA 238 6.05e+01 2rslA 140 6.05e+01 2rslA c.53.1.1 33345 1h70A 255 6.09e+01 1h70A d.126.1.3 60711 1u13A 455 6.09e+01 a.104.1.1 107578 1s29A 92 6.09e+01 a.4.5.46 98373 1korA 400 6.13e+01 c.26.2.1,d.210.1.1 72824,72825 1x8vA 455 6.21e+01 6paxA 133 6.26e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1rypL 212 6.37e+01 d.153.1.4 41880 1euwA 152 6.46e+01 1dupA b.85.4.1 28349 1h5zA 455 6.48e+01 a.104.1.1 90622 1u09A 476 6.51e+01 e.8.1.4 107545 1ef8A 261 6.52e+01 1ef8A c.14.1.3 30921 2f6rA 281 6.52e+01 2cxaA 256 6.59e+01 1d4xG 126 6.69e+01 1d0nA d.109.1.1 59109 1uwzA 136 6.84e+01 c.97.1.1 108081 1zkpA 268 6.84e+01 1z90A 469 6.87e+01 1js8A 394 6.87e+01 a.86.1.1,b.112.1.1 67219,67220 1yvcA 70 6.90e+01 1wlfA 179 6.97e+01 b.52.2.3,d.31.1.1 109396,109397 1jpaA 312 7.09e+01 d.144.1.7 67011 1xebA 150 7.12e+01 1g2bA 62 7.14e+01 1tud b.34.2.1 24488 2f6uA 234 7.17e+01 1r7lA 110 7.18e+01 d.277.1.1 104837 2fb5A 205 7.26e+01 1v0eA 666 7.28e+01 1mjhA 162 7.29e+01 1mjhA c.26.2.4 31639 1vqqA 646 7.29e+01 1rypB 250 7.32e+01 1rypB d.153.1.4 41933 1omyA 65 7.37e+01 g.3.7.1 93354 1mjc 69 7.43e+01 1mjc b.40.4.5 25319 1xwsA 313 7.45e+01 1jalA 363 7.46e+01 c.37.1.8,d.15.10.2 84138,84139 1w9gA 104 7.53e+01 2ahqA 76 7.53e+01 1zdnA 158 7.61e+01 2gs8A 317 7.62e+01 1e7uA 961 7.72e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1l1dA 152 7.75e+01 b.88.1.3 73452 1bb9 115 7.77e+01 1bb9 b.34.2.1 24554 1a6wL 109 7.79e+01 1mfa b.1.1.1 20252 1p99A 295 7.85e+01 c.94.1.1 94384 1rypH 205 7.85e+01 d.153.1.4 41876 1io1A 398 7.85e+01 1io1A e.32.1.1 62611 2cu1A 103 7.89e+01 1ako 268 7.92e+01 1ako d.151.1.1 41779 1ukvG 453 7.95e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1x92A 199 7.98e+01 1sjqA 105 7.99e+01 d.58.7.1 105660 1y96A 86 8.09e+01 1zq1C 633 8.12e+01 1jhfA 202 8.15e+01 a.4.5.2,b.87.1.1 63057,63058 1txyA 104 8.24e+01 1p0zA 131 8.32e+01 d.110.6.1 93882 1r5tA 142 8.39e+01 c.97.1.1 104812 1x6vA 630 8.40e+01 1sdjA 310 8.47e+01 d.21.1.2,d.21.1.2 98807,98808 1uheA 97 8.48e+01 2aefA 234 8.52e+01 1r61A 207 8.54e+01 c.8.8.1 97138 1hrkA 359 8.60e+01 1hrkA c.92.1.1 61228 2d9iA 96 8.62e+01 1w07A 659 8.64e+01 1u0mA 382 8.65e+01 c.95.1.2,c.95.1.2 107557,107558 1ep3B 262 8.66e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1vimA 200 8.68e+01 c.80.1.3 100758 1a79A 171 8.73e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1wyzA 242 8.78e+01 1wz7A 111 8.85e+01 1u6bA 98 8.87e+01 d.58.7.1 107703 2bs3A 656 8.96e+01