# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1y2qA 143 1.40e-01 1wqaA 455 2.00e-01 1mp9A 198 6.13e-01 d.129.1.1,d.129.1.1 91385,91386 1ufkA 254 6.71e-01 c.66.1.39 99340 1qysA 106 7.12e-01 k.41.1.1 96603 1rz3A 201 7.59e-01 c.37.1.6 98132 2gfgA 193 1.14e+00 1aisA 182 1.16e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 2ewtA 71 1.22e+00 1zxmA 400 1.23e+00 1z4rA 168 1.55e+00 1vljA 407 1.64e+00 e.22.1.2 108832 1wy7A 207 2.03e+00 1dlyA 164 2.14e+00 1dlyA a.1.1.1 14983 1v6tA 255 2.56e+00 1vdxA 184 2.66e+00 1gesA 450 2.73e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1rtxA 123 2.80e+00 a.1.1.1 97827 1s69A 124 2.93e+00 a.1.1.1 105305 1tqjA 230 3.19e+00 c.1.2.2 107228 1f4pA 147 3.36e+00 5nul c.23.5.1 59651 1usgA 346 3.57e+00 c.93.1.1 99864 1xqiA 195 3.73e+00 1jg1A 235 3.79e+00 c.66.1.7 66661 1iyxA 432 4.35e+00 c.1.11.1,d.54.1.1 83815,83816 1rpjA 288 4.49e+00 2dri c.93.1.1 35656 2bcqA 335 4.95e+00 1vgjA 184 5.10e+00 1gefA 123 5.41e+00 1gefA c.52.1.18 60465 1pvgA 418 5.44e+00 d.14.1.3,d.122.1.2 95161,95162 1o4sA 389 6.21e+00 c.67.1.1 86620 1vlwA 217 6.36e+00 c.1.10.1 108868 2lbp 346 6.47e+00 2liv c.93.1.1 35709 1v60A 123 7.01e+00 1rp4A 389 7.07e+00 a.227.1.1 105027 1mqsA 671 7.16e+00 e.25.1.1 79414 1gheA 177 7.27e+00 d.108.1.1 76222 1dljA 402 7.32e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2ax4A 198 7.69e+00 1wl9A 440 7.75e+00 1qb7A 236 7.84e+00 1qb7A c.61.1.1 34087 1y8qB 640 7.98e+00 1zesA 125 8.26e+00 1vmaA 306 8.45e+00 a.24.13.1,c.37.1.10 108887,108888 1gudA 288 9.08e+00 c.93.1.1 83326 1uslA 170 9.19e+00 c.121.1.1 99871 1pv9A 348 9.20e+00 c.55.2.1,d.127.1.1 95157,95158 1az9 457 9.54e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 1xgsA 295 9.55e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1gcoA 261 9.87e+00 1ybvA c.2.1.2 29884 1geeA 261 9.92e+00 c.2.1.2 90509 1h7mA 102 1.01e+01 d.79.3.1 83485 1z15A 344 1.02e+01 1mkyA 439 1.06e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1wa3A 205 1.09e+01 1epuA 591 1.10e+01 1dn1A e.25.1.1 43358 1gntA 553 1.14e+01 e.26.1.1 70290 3ladA 476 1.18e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1e2uA 553 1.21e+01 1e1dA e.26.1.1 43362 1vm6A 228 1.23e+01 c.2.1.3,d.81.1.3 108876,108877 1gw5A 621 1.25e+01 a.118.1.10 70629 1gnlA 544 1.26e+01 e.26.1.1 70287 1au1A 166 1.30e+01 1ifa a.26.1.3 16889 2bwvA 440 1.34e+01 1r89A 437 1.39e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 2f62A 161 1.42e+01 1rztA 331 1.42e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2abwA 227 1.44e+01 1js3A 486 1.53e+01 c.67.1.6 67215 1b00A 127 1.57e+01 3chy c.23.1.1 31122 1xsnA 335 1.63e+01 1tvlA 454 1.67e+01 c.1.16.4 107366 1wy2A 351 1.68e+01 1q52A 314 1.71e+01 c.14.1.3 95846 1vkmA 297 1.71e+01 c.138.1.1 108670 1trb 320 1.73e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1b1cA 181 1.73e+01 1amoA c.23.5.2 31212 2f2tA 161 1.75e+01 1c44A 123 1.76e+01 1qndA d.106.1.1 40795 1cg2A 393 1.81e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1qbgA 272 1.82e+01 1d4aA c.23.5.3 31227 1v95A 130 1.83e+01 c.51.1.1 108435 2c07A 285 1.93e+01 1gxjA 186 1.93e+01 d.215.1.1 70707 2a0kA 161 2.01e+01 1jnyA 435 2.01e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1gy7A 125 2.10e+01 d.17.4.2 70738 1wu7A 434 2.11e+01 2h0uA 217 2.14e+01 1ituA 369 2.16e+01 c.1.9.7 71423 1vmeA 410 2.24e+01 c.23.5.1,d.157.1.3 108893,108894 2f9zC 159 2.24e+01 1t6t1 118 2.28e+01 2liv 344 2.31e+01 2liv c.93.1.1 35708 2f8mA 244 2.34e+01 1wd3A 482 2.34e+01 b.29.1.21,b.42.8.1 109233,109234 1b5l 172 2.36e+01 1b5l a.26.1.3 16900 1zmdA 474 2.38e+01 1jg5A 83 2.39e+01 d.205.1.1 66666 1wvcA 259 2.42e+01 1rpxA 230 2.53e+01 1rpxA c.1.2.2 28536 1yx0A 159 2.59e+01 1hlrA 907 2.61e+01 1vlbA 907 2.61e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1c24A 263 2.61e+01 1c24A d.127.1.1 41148 2ggcA 263 2.78e+01 1d4aA 273 2.79e+01 1d4aA c.23.5.3 31219 1ig0A 319 2.79e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1x6vA 630 2.85e+01 1kg0C 136 2.90e+01 d.169.1.1 72445 1v8bA 479 2.94e+01 1p1lA 102 2.95e+01 d.58.5.2 87695 1w25A 459 3.00e+01 1w85I 49 3.03e+01 1zbmA 280 3.05e+01 1tzfA 259 3.09e+01 c.68.1.13 107476 1xnzA 264 3.10e+01 2dri 271 3.14e+01 2dri c.93.1.1 35637 8abp 306 3.14e+01 8abp c.93.1.1 35647 1mjhA 162 3.15e+01 1mjhA c.26.2.4 31639 1xorA 349 3.15e+01 1r1mA 164 3.16e+01 d.79.7.1 96820 1o20A 427 3.18e+01 c.82.1.1 86556 1knwA 425 3.18e+01 b.49.2.3,c.1.6.1 90969,90970 1a8p 258 3.32e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1fjgT 106 3.36e+01 1fjfT a.7.6.1 16338 2culA 232 3.37e+01 2a2kA 175 3.38e+01 1wf3A 301 3.39e+01 2fliA 220 3.40e+01 1eudB 396 3.49e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1ebdC 41 3.49e+01 1ebdC a.9.1.1 16355 1kafA 108 3.49e+01 d.199.1.1 68372 2czdA 208 3.51e+01 1r8nA 185 3.54e+01 b.42.4.1 104851 1uj2A 252 3.57e+01 c.37.1.6 99452 1iynA 295 3.59e+01 a.93.1.1 90722 1oi1A 221 3.62e+01 b.34.9.3,b.34.9.3 87037,87038 1kk1A 410 3.62e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1qhxA 178 3.77e+01 1qhsA c.37.1.3 31936 1y9aA 360 3.82e+01 1s2oA 244 3.84e+01 1xt9A 212 3.89e+01 1ofuA 320 3.90e+01 c.32.1.1,d.79.2.1 86972,86973 1tx2A 297 3.98e+01 c.1.21.1 107420 1dxy 333 4.00e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1g6hA 257 4.05e+01 1gajA c.37.1.12 60318 1l6sA 323 4.09e+01 c.1.10.3 73627 1s8nA 205 4.09e+01 c.23.1.1 105374 1tbbA 332 4.14e+01 a.211.1.2 106741 2a35A 215 4.14e+01 1j34B 123 4.21e+01 d.169.1.1 84049 1u5tC 202 4.21e+01 a.4.5.54,a.4.5.54 107688,107689 1tzjA 338 4.21e+01 1lxjA 104 4.24e+01 d.58.48.1 84736 1cc8A 73 4.26e+01 1cc8A d.58.17.1 39343 1hc7A 477 4.27e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 2bivA 243 4.28e+01 2blnA 305 4.28e+01 1ymkA 175 4.30e+01 1xtqA 177 4.37e+01 2d83A 363 4.51e+01 2atxA 194 4.53e+01 1bjwA 382 4.63e+01 1bjwA c.67.1.1 34349 1ub0A 258 4.64e+01 c.72.1.2 88394 1j8yF 297 4.67e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1vdwA 254 4.72e+01 e.7.1.1 100569 1e79G 272 4.73e+01 1e79G c.49.2.1 33158 1knyA 253 4.75e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1yz7A 188 4.81e+01 1y9wA 140 4.82e+01 1fm0E 150 4.83e+01 1fmaE d.41.5.1 38629 1ja9A 274 4.92e+01 c.2.1.2 62817 1vddA 228 4.94e+01 e.49.1.1 108519 1fpzA 212 4.96e+01 1fpzA c.45.1.1 59976 1zcoA 262 4.96e+01 1y63A 184 4.99e+01 2c6cA 707 5.01e+01 1vzsA 76 5.06e+01 f.45.1.1 108972 1b3tA 147 5.09e+01 1b3tA d.58.8.1 39228 1to6A 371 5.15e+01 c.141.1.1 107170 1wvfA 520 5.15e+01 2bx2L 517 5.29e+01 2fcr 173 5.32e+01 1rcf c.23.5.1 31151 1xfjA 261 5.37e+01 d.194.1.2 109585 1o0xA 262 5.40e+01 d.127.1.1 80755 2f4nA 273 5.44e+01 1w41A 101 5.46e+01 1j58A 385 5.54e+01 b.82.1.2 71531 1nhkL 144 5.57e+01 1npk d.58.6.1 39142 1yj7A 171 5.58e+01 1xrjA 261 5.63e+01 1pyoB 105 5.64e+01 1yvkA 163 5.70e+01 1r3sA 367 5.71e+01 c.1.22.1 96963 1kaeA 434 5.73e+01 c.82.1.2 72247 1nq7A 244 5.74e+01 a.123.1.1 92047 1izoA 417 5.75e+01 a.104.1.1 83851 1mzgA 146 5.77e+01 d.224.1.1 79696 1zjcA 418 5.78e+01 1j8mF 297 5.87e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1v5vA 401 5.88e+01 3lzt 129 5.93e+01 3lzt d.2.1.2 36245 1u08A 386 5.95e+01 c.67.1.1 107543 1fvuB 125 6.03e+01 1ixxB d.169.1.1 42346 1ny6A 267 6.04e+01 c.37.1.20 92321 2ci1A 275 6.08e+01 1jsf 130 6.27e+01 3lzt d.2.1.2 36410 1aky 221 6.28e+01 1zin c.37.1.1,g.41.2.1 31896,45197 2eshA 118 6.28e+01 1txjA 171 6.37e+01 b.88.1.2 107424 1kevA 351 6.37e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1ucnA 152 6.39e+01 d.58.6.1 99183 1vdmA 153 6.42e+01 1xqaA 113 6.44e+01 1vr6A 350 6.51e+01 1vimA 200 6.51e+01 c.80.1.3 100758 1w6tA 444 6.54e+01 1ynmA 247 6.57e+01 2fbmA 291 6.58e+01 1oe8A 211 6.61e+01 a.45.1.1,c.47.1.5 86905,86906 2iu4A 336 6.63e+01 1jjvA 206 6.68e+01 c.37.1.1 71698 1yseA 141 6.75e+01 1wdjA 187 6.76e+01 1uroA 367 6.78e+01 1uroA c.1.22.1 29675 1jyhA 157 6.89e+01 d.60.1.3 71956 1lmq 129 6.93e+01 3lzt d.2.1.2 36588 1c7sA 858 7.02e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 2b9eA 303 7.04e+01 1lz1 130 7.08e+01 3lzt d.2.1.2 36415 1n2sA 299 7.10e+01 c.2.1.2 79857 1xb4A 202 7.11e+01 1vkyA 347 7.21e+01 e.53.1.1 108696 1vhoA 346 7.22e+01 b.49.3.1,c.56.5.4 100694,100695 2fgeA 995 7.23e+01 1i8jA 323 7.29e+01 1b4kA c.1.10.3 61968 1rzmA 338 7.29e+01 c.1.10.4 105137 2fp4B 395 7.33e+01 2fhxA 246 7.47e+01 1esiA 262 7.48e+01 1skf e.3.1.1 42682 1lxnA 99 7.49e+01 d.58.48.1 84737 1p3jA 217 7.59e+01 c.37.1.1,g.41.2.1 94022,94023 1vmbA 140 7.60e+01 1k8tA 510 7.61e+01 e.41.1.1 68316 1mhdA 132 7.63e+01 1mhdA d.164.1.1 42175 1luaA 287 7.66e+01 c.2.1.7,c.58.1.4 78216,78217 1t1vA 93 7.69e+01 c.47.1.14 106278 1npk 154 7.72e+01 1npk d.58.6.1 39099 2gbp 309 7.72e+01 1gca c.93.1.1 35657 1fts 295 7.73e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1o5zA 442 7.78e+01 c.59.1.2,c.72.2.2 92530,92531 1y5iA 1246 7.80e+01 1r9gA 216 7.81e+01 c.23.16.1 97258 1nx8A 273 7.90e+01 b.82.2.8 86374 1tc1A 220 7.92e+01 1tc1A c.61.1.1 34083 2fxuA 375 7.95e+01 2b0cA 206 8.11e+01 1qxyA 252 8.15e+01 d.127.1.1 96565 1fc6A 388 8.17e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1d3gA 367 8.19e+01 1d3gA c.1.4.1 28600 1jqbA 351 8.23e+01 b.35.1.2,c.2.1.1 77151,77152 1p57B 255 8.29e+01 b.47.1.2 94126 1qb0A 211 8.31e+01 1c25 c.46.1.1 32699 1y1nA 291 8.33e+01 1khvA 516 8.38e+01 e.8.1.4 68627 1q16A 1247 8.40e+01 b.52.2.2,c.81.1.1 95546,95547 1qgxA 357 8.43e+01 1qgxA e.7.1.1 42973 1atiA 505 8.59e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1y9kA 157 8.70e+01 1wvqA 167 8.72e+01 1ddwA 120 8.80e+01 1evhA b.55.1.4 27001 1ozjA 144 8.80e+01 d.164.1.1 93846 1oksA 56 8.82e+01 a.8.5.1 93271 1eexB 224 8.84e+01 1dioB c.51.3.1 33213 1nzaA 103 8.88e+01 d.58.5.2 86444 1hyeA 313 8.93e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1k92A 455 8.93e+01 c.26.2.1,d.210.1.1 68325,68326 1w6uA 302 9.00e+01