# 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 1v7lA 163 1.85e-01 2ganA 190 4.82e-01 1q1gA 276 1.03e+00 c.56.2.1 95574 1vbkA 307 1.14e+00 1rliA 184 1.16e+00 c.23.5.6 97647 1vddA 228 1.55e+00 e.49.1.1 108519 2gjgA 248 1.66e+00 1hf2A 210 1.96e+00 1hf2A b.80.3.1,c.102.1.1 60992,60993 2gfaA 119 2.06e+00 1bg6 359 2.09e+00 1bg6 a.100.1.5,c.2.1.6 18810,30214 2beiA 170 2.28e+00 2bsxA 253 2.38e+00 1p42A 270 2.50e+00 d.14.1.7,d.14.1.7 87754,87755 1qmeA 702 2.84e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1d2oA 187 3.47e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1w36D 608 3.52e+00 1r6xA 395 3.66e+00 b.122.1.3,c.26.1.5 97167,97168 2d13A 227 3.66e+00 2gp4A 628 3.77e+00 1vi4A 174 3.99e+00 c.8.7.1 100731 1cjbA 231 4.60e+00 1qk3A c.61.1.1 34079 1mx3A 347 5.01e+00 c.2.1.4,c.23.12.1 79638,79639 2fe7A 166 5.06e+00 1jtkA 136 5.10e+00 c.97.1.1 71862 1odkA 235 5.28e+00 c.56.2.1 86863 2g76A 335 5.87e+00 1rxyA 253 6.21e+00 c.56.2.1 98065 1uwzA 136 6.49e+00 c.97.1.1 108081 1fsgA 233 6.59e+00 1qk3A c.61.1.1 34029 1c1yB 77 6.63e+00 1c1yB d.15.1.5 37618 1lx7A 253 6.63e+00 c.56.2.1 74329 1iz5A 249 6.68e+00 d.131.1.2,d.131.1.2 83834,83835 1gheA 177 6.92e+00 d.108.1.1 76222 1pmd 675 7.25e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 2arkA 188 7.35e+00 1geeA 261 7.93e+00 c.2.1.2 90509 1gcoA 261 8.02e+00 1ybvA c.2.1.2 29884 1pxwA 128 8.25e+00 d.79.3.1 95305 1xdnA 277 8.35e+00 1h16A 759 8.37e+00 c.7.1.1 76462 1jx2B 315 8.65e+00 c.37.1.8 67404 1wn5A 130 8.75e+00 1g8lA 411 9.44e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1g8fA 511 9.57e+00 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1rqpA 299 9.70e+00 b.141.1.1,c.132.1.1 97754,97755 1cm5A 759 1.01e+01 1cm5A c.7.1.1 30671 1r0wA 286 1.02e+01 c.37.1.12 96754 1g0oA 283 1.04e+01 1ybvA c.2.1.2 60181 1y0bA 197 1.06e+01 1xf1A 926 1.07e+01 1g3qA 237 1.08e+01 1hyqA c.37.1.10 60237 2f1fA 164 1.12e+01 1ln1A 214 1.16e+01 d.129.3.2 74038 1l3yA 41 1.17e+01 g.3.11.6 73558 1fc6A 388 1.19e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1je0A 236 1.20e+01 c.56.2.1 66581 2aa4A 289 1.20e+01 2bnfB 241 1.20e+01 1am2 199 1.21e+01 1am2 b.86.1.2 28381 1qlmA 316 1.23e+01 1qlmA d.147.1.1 41765 1y0yA 353 1.24e+01 1xebA 150 1.26e+01 1cliA 345 1.33e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1gz6A 319 1.39e+01 c.2.1.2 76410 1air 353 1.43e+01 1air b.80.1.1 28018 1fjhA 257 1.43e+01 1fjhB c.2.1.2 29870 1uxtA 501 1.44e+01 c.82.1.1 108125 1zymA 258 1.45e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1k78A 149 1.49e+01 a.4.1.5,a.4.1.5 68255,68256 1nbwA 607 1.49e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2c1gA 431 1.60e+01 1g57A 217 1.63e+01 1g57A d.115.1.2 60253 1omiA 248 1.64e+01 b.82.3.3,a.4.5.4 87079,87080 1kl1A 419 1.64e+01 c.67.1.4 72663 1kafA 108 1.65e+01 d.199.1.1 68372 1yrvA 169 1.67e+01 1rhs 296 1.67e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1yjsA 419 1.68e+01 1i9sA 210 1.70e+01 1i9sA c.45.1.1 62099 1w99A 558 1.71e+01 2evaA 307 1.72e+01 1xkwA 665 1.73e+01 1e19A 314 1.75e+01 1b7bA c.73.1.1 34967 1xfoA 357 1.79e+01 1gs5A 258 1.82e+01 c.73.1.2 70395 1o88A 353 1.83e+01 b.80.1.1 81178 1mrp 309 1.83e+01 1mrp c.94.1.1 35796 2ffjA 300 1.83e+01 1nbaA 264 1.88e+01 1nbaA c.33.1.3 31753 1vc3B 97 1.88e+01 1h8eA 510 1.89e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1vhsA 175 1.92e+01 d.108.1.1 100698 1ad3A 452 1.93e+01 1ad3A c.82.1.1 35335 2apr 325 1.93e+01 2er7E b.50.1.2 26819 3aprE 325 1.93e+01 2er7E b.50.1.2 26820 1cjcA 460 1.99e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1ja9A 274 2.00e+01 c.2.1.2 62817 1nnfA 309 2.11e+01 c.94.1.1 85903 1a8y 367 2.12e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1sc6A 404 2.15e+01 2c46A 241 2.18e+01 1whzA 70 2.25e+01 1vziA 126 2.25e+01 b.1.13.1,g.41.5.2 108967,108968 1xsnA 335 2.28e+01 2gupA 292 2.33e+01 1mdwA 328 2.34e+01 d.3.1.3 84934 2f06A 144 2.37e+01 1e9lA 377 2.37e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1yavA 159 2.38e+01 1x6vA 630 2.39e+01 1wi6A 88 2.41e+01 1zc1A 208 2.50e+01 2mspA 126 2.53e+01 1mspA b.1.11.2 22335 1bf6A 291 2.55e+01 1pscA c.1.9.3 29065 1vcbC 160 2.56e+01 1vcbC b.3.3.1 22535 2cq2A 114 2.56e+01 1wwkA 307 2.56e+01 2c1iA 431 2.58e+01 1s72E 178 2.58e+01 d.141.1.1,d.141.1.1 105323,105324 1vi2A 300 2.63e+01 c.2.1.7,c.58.1.5 100726,100727 1q33A 292 2.66e+01 d.113.1.1 95657 1a6wH 120 2.67e+01 1mfa b.1.1.1 20253 2cveA 191 2.69e+01 1p6pA 125 2.70e+01 b.60.1.2 87839 1ne9A 335 2.70e+01 d.108.1.4,d.108.1.4 91839,91840 2gasA 307 2.74e+01 1ixcA 294 2.75e+01 a.4.5.37,c.94.1.1 83764,83765 1zsoA 164 2.77e+01 1ru8A 232 2.77e+01 c.26.2.1 97849 1ko3A 230 2.77e+01 d.157.1.1 90974 1jnrB 150 2.80e+01 d.58.1.5 66969 2b5gA 171 2.84e+01 1jeoA 180 2.92e+01 c.80.1.3 66611 2g50A 530 2.93e+01 2atrA 138 2.94e+01 1k7jA 206 2.95e+01 d.115.1.1 72103 1h8eH 146 2.98e+01 1e79H b.93.1.1 60757 1rztA 331 2.99e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1nr0A 611 3.03e+01 b.69.4.1,b.69.4.1 86078,86079 2bneA 241 3.10e+01 1fwxA 595 3.12e+01 b.6.1.4,b.69.3.1 60069,60070 2a33A 215 3.14e+01 1cs1A 386 3.17e+01 1ibjA c.67.1.3 34399 1ek6A 348 3.17e+01 1xel c.2.1.2 29800 1ep3B 262 3.22e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1gp1A 198 3.24e+01 1gp1A c.47.1.10 33059 1wkrA 340 3.27e+01 b.50.1.2 109395 1i12A 160 3.29e+01 1i21A d.108.1.1 61515 1q67A 231 3.32e+01 b.55.1.7 95960 1i1dA 161 3.34e+01 1i21A d.108.1.1 61526 1dm0A 287 3.35e+01 1dm0A d.165.1.2 42227 1zemA 262 3.35e+01 1vf8A 377 3.36e+01 1y5iA 1246 3.37e+01 1q16A 1247 3.39e+01 b.52.2.2,c.81.1.1 95546,95547 1mvwB 145 3.39e+01 i.15.1.1 79524 2bibA 547 3.43e+01 1e79A 510 3.48e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2bcqA 335 3.49e+01 1uheA 97 3.54e+01 1t9hA 307 3.61e+01 1qqp2 218 3.61e+01 1qqp2 1fs7A 485 3.63e+01 1qdbA a.138.1.3 19691 2gwhA 298 3.73e+01 1jcfA 344 3.78e+01 c.55.1.1,c.55.1.1 62878,62879 1jkeA 145 3.78e+01 c.110.1.1 66791 1xr4A 509 3.78e+01 1dkuA 317 3.79e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1yovA 537 3.81e+01 1zbmA 280 3.82e+01 1dbwA 126 3.88e+01 1dbwA c.23.1.1 31095 2f8aA 208 4.04e+01 1k0hA 117 4.06e+01 b.106.1.2 71975 1s3cA 141 4.08e+01 2f1rA 171 4.09e+01 1c3gA 170 4.11e+01 1c3gA b.4.1.1,b.4.1.1 22831,22832 1t0iA 191 4.14e+01 c.23.5.4 106209 2gefA 217 4.16e+01 1vicA 262 4.19e+01 c.68.1.13 100756 2c2hA 192 4.24e+01 1oaqH 121 4.27e+01 b.1.1.1 92707 1in4A 334 4.27e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1ls6A 295 4.30e+01 c.37.1.5 91115 2stv 195 4.30e+01 2stv b.121.7.1 23287 1cz4A 185 4.30e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 2bukA 196 4.30e+01 1omoA 322 4.32e+01 c.2.1.13 104017 1v37A 177 4.36e+01 1xbiA 120 4.39e+01 1oniA 137 4.42e+01 d.79.1.1 87144 1f56A 91 4.42e+01 2cbp b.6.1.1 22896 1neu 124 4.47e+01 1neu b.1.1.1 19704 2bsaA 303 4.47e+01 1qgdA 662 4.55e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1eg7A 557 4.56e+01 1eg7A c.37.1.10 32241 1al3 324 4.56e+01 1al3 c.94.1.1 35835 1pymA 295 4.67e+01 1pymA c.1.12.7 29308 1lm8V 160 4.73e+01 b.3.3.1 74035 1w34A 304 4.78e+01 1psdA 409 4.80e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1gyfA 62 4.86e+01 1gyfA d.76.1.1 39749 1ez0A 510 4.89e+01 1eyyA c.82.1.1 35385 1ijqA 316 4.91e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1w66A 232 4.93e+01 1jffA 451 4.99e+01 c.32.1.1,d.79.2.1 62932,62933 1vllA 334 5.01e+01 c.2.1.13 108834 1tlfA 301 5.05e+01 1tlfA c.93.1.1 35687 1k6dA 220 5.05e+01 c.124.1.2 72082 1x65A 89 5.12e+01 1lcyA 325 5.12e+01 b.36.1.4,b.47.1.1 73834,73835 1q47A 495 5.16e+01 b.69.12.1 104532 2gujA 155 5.16e+01 1m4jA 142 5.17e+01 d.109.1.2 78602 1m0wA 491 5.18e+01 c.30.1.4,d.142.1.6 78363,78364 1mvfD 82 5.18e+01 b.129.1.1 85143 1q60A 99 5.18e+01 2a5jA 191 5.20e+01 1pysA 350 5.26e+01 1pysA d.104.1.1 40775 1ta3A 274 5.27e+01 c.1.8.5 106731 1z02A 446 5.28e+01 1y7rA 133 5.28e+01 2f5uA 447 5.30e+01 1svy 114 5.34e+01 1svy d.109.1.1 40831 2c2xA 281 5.34e+01 1s2wA 295 5.40e+01 c.1.12.7 98407 1yge 839 5.41e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1ahl 49 5.41e+01 1ahl g.9.1.1 44601 1jbkA 195 5.42e+01 c.37.1.20 71631 1wraA 308 5.43e+01 1s1iG 119 5.51e+01 i.1.1.1 105181 1wwrA 171 5.61e+01 1sqrA 95 5.63e+01 1ukuA 102 5.78e+01 d.58.5.2 99533 1ltlA 279 5.78e+01 b.40.4.11 84701 2g8lA 299 5.79e+01 1z1dA 103 5.81e+01 1qpxA 218 5.88e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1amf 233 5.90e+01 1wod c.94.1.1 35833 1f0lA 535 5.90e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1owfA 99 5.93e+01 a.55.1.1 87487 1zbqA 327 5.94e+01 3cox 507 5.95e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1bx1A 314 6.01e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1y0nA 78 6.01e+01 1uf3A 228 6.01e+01 d.159.1.6 99317 2fvgA 340 6.01e+01 1qjcA 158 6.05e+01 1b6tA c.26.1.3 63328 1j8mF 297 6.05e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2ccjA 205 6.06e+01 1whi 122 6.08e+01 1whi b.39.1.1 24810 2aw5A 541 6.09e+01 1b7yB 785 6.11e+01 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 1jj2E 177 6.14e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1vjpA 394 6.14e+01 c.2.1.3,d.81.1.3 100828,100829 1zavA 180 6.16e+01 2bmwA 304 6.21e+01 1ebfA 358 6.25e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1vqoE 178 6.27e+01 1j6pA 418 6.31e+01 b.92.1.4,c.1.9.9 77089,77090 1yllA 200 6.36e+01 1ehiA 377 6.37e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1que 303 6.38e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1ignA 246 6.41e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1a4sA 503 6.52e+01 1bpwA c.82.1.1 35361 1auoA 218 6.54e+01 1auoA c.69.1.14 34716 1n0lA 224 6.56e+01 b.1.11.1,b.7.2.1 79744,79745 1e79H 146 6.56e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 2ck3A 510 6.57e+01 1bd3A 243 6.57e+01 1bd3A c.61.1.1 34098 1k92A 455 6.58e+01 c.26.2.1,d.210.1.1 68325,68326 1mc0A 368 6.64e+01 d.110.2.1,d.110.2.1 78937,78938 1fjrA 195 6.65e+01 1fjrA b.102.1.1 59855 1b0uA 262 6.69e+01 1b0uA c.37.1.12 32370 1q0rA 298 6.72e+01 c.69.1.28 95508 1rtfB 252 6.73e+01 5ptp 1od6A 160 6.75e+01 c.26.1.3 86836 1j9bA 141 6.79e+01 c.47.1.12 66459 1j05B 121 6.81e+01 b.1.1.1 90736 1go2A 304 6.81e+01 b.43.4.2,c.25.1.1 76243,76244 1xtqA 177 6.85e+01 1b34B 118 6.88e+01 1b34B b.38.1.1 24797 2ffsA 157 6.91e+01 1z6gA 218 6.92e+01 1xn9A 101 6.93e+01 1fo8A 343 6.93e+01 1foaA c.68.1.10 59927 1k3bB 164 6.98e+01 d.3.1.1 72015 1uz5A 402 7.01e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1tqnA 486 7.04e+01 a.104.1.1 107238 1vctA 205 7.05e+01 1iro 54 7.07e+01 1rb9 g.41.5.1 45223 2prd 174 7.10e+01 2prd b.40.5.1 25435 2btoA 473 7.10e+01 1sdsA 117 7.14e+01 d.79.3.1 105439 1yh1A 359 7.15e+01 2a6hC 1119 7.18e+01 1sviA 195 7.21e+01 c.37.1.8 106048 1w2wB 191 7.22e+01 1cf2O 337 7.24e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1s1dA 331 7.26e+01 b.67.3.1 98344 1zx8A 136 7.28e+01 1uu1A 335 7.28e+01 c.67.1.1 99993 1syxB 86 7.30e+01 2coeA 120 7.33e+01 1wwzA 159 7.35e+01 1vl2A 421 7.36e+01 c.26.2.1,d.210.1.1 108708,108709 1pmy 123 7.38e+01 1bqk b.6.1.1 22888 1c3cA 429 7.40e+01 1c3cA a.127.1.1 19425 2bgcA 238 7.43e+01 1ufoA 238 7.45e+01 c.69.1.27 99344 1i7qA 519 7.50e+01 1qdlA d.161.1.1 61901 1y4tA 322 7.50e+01 2fp7B 172 7.53e+01 1okgA 373 7.55e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1ogiA 303 7.58e+01 b.43.4.2,c.25.1.1 92914,92915 1z5oA 242 7.64e+01 1tu5A 746 7.65e+01 1chmA 401 7.72e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1lxnA 99 7.76e+01 d.58.48.1 84737 2bl1A 172 7.78e+01 1ctt 294 7.83e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1y81A 138 7.84e+01 1r0vA 305 7.84e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1r6vA 671 7.91e+01 2aamA 309 7.93e+01 1q48A 134 8.00e+01 d.224.1.2 95783 2f2eA 146 8.04e+01 1ml8A 134 8.12e+01 d.227.1.2 85013 1om0A 274 8.19e+01 c.1.8.5 87058 1a04A 215 8.24e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1ydnA 295 8.28e+01 1jztA 246 8.28e+01 c.104.1.1 63319 1m2eA 135 8.31e+01 c.23.1.5 78478 1xmiA 291 8.33e+01 1l5jA 865 8.35e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1e0tA 470 8.41e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xcbA 211 8.42e+01 a.4.5.38,c.2.1.12 109552,109553 1ha1 184 8.45e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1jysA 242 8.48e+01 c.56.2.1 77216 1ko7A 314 8.51e+01 c.98.2.1,c.91.1.2 72797,72798 1qb0A 211 8.53e+01 1c25 c.46.1.1 32699 1dxeA 256 8.57e+01 1dxeA c.1.12.5 29310 1woqA 267 8.64e+01 c.55.1.10,c.55.1.10 109462,109463 2a6hD 1524 8.65e+01 1fx2A 235 8.65e+01 1fx2A d.58.29.1 39430 1iv8A 720 8.66e+01 b.71.1.1,c.1.8.1 76842,76843 1nhkL 144 8.68e+01 1npk d.58.6.1 39142 1s29A 92 8.74e+01 a.4.5.46 98373 2g6tA 306 8.78e+01 1a4iA 301 8.80e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1fnd 314 8.83e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 2gwgA 350 8.85e+01 2furA 209 8.86e+01 1n7hA 381 8.91e+01 c.2.1.2 80250 2a8kA 108 8.92e+01 1wod 233 8.92e+01 1wod c.94.1.1 35832 1sgjA 284 8.93e+01 c.1.12.5 105535 1ooyA 481 8.95e+01 c.124.1.3,c.124.1.2 93388,93389 1xdwA 331 8.97e+01 1vggA 161 8.97e+01