# List of top-scoring protein chains for t04-100-30-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 1vp4A 425 5.06e-01 1vggA 161 6.74e-01 1uirA 314 9.25e-01 c.66.1.17 99429 1jztA 246 1.23e+00 c.104.1.1 63319 1avaA 403 1.32e+00 1jdc b.71.1.1,c.1.8.1 27797,28784 1amy 403 1.46e+00 1jdc b.71.1.1,c.1.8.1 27799,28786 1phk 298 1.56e+00 1cdkA d.144.1.7 41635 1ng4A 390 2.17e+00 c.3.1.2,d.16.1.3 85666,85667 1e9rA 437 2.37e+00 c.37.1.11 64827 1bqk 124 2.54e+00 1bqk b.6.1.1 22889 2al2A 436 2.72e+00 1ryiA 382 2.79e+00 1oneA 436 3.20e+00 4enl c.1.11.1,d.54.1.1 29200,38844 4enl 436 3.41e+00 4enl c.1.11.1,d.54.1.1 29202,38846 2fckA 181 3.45e+00 2al1A 436 4.09e+00 1w1wA 430 4.26e+00 1w77A 228 4.33e+00 1dar 691 4.34e+00 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1qysA 106 4.48e+00 k.41.1.1 96603 1vl6A 388 4.86e+00 c.2.1.7,c.58.1.3 108724,108725 1xwyA 264 5.23e+00 1qo0D 196 5.40e+00 1qo0D c.23.1.3 31125 2ffuA 501 5.83e+00 1aszB 490 5.87e+00 1b8aA b.40.4.1,d.104.1.1 25241,40762 1lc5A 364 6.04e+00 c.67.1.1 73827 1fcyA 236 6.53e+00 2lbd a.123.1.1 19282 1te6A 439 6.66e+00 c.1.11.1,d.54.1.1 106797,106798 1eg9A 449 6.93e+00 1ndoA b.33.1.2,d.129.3.3 24443,41322 1ymqA 261 7.52e+00 1d8wA 426 7.68e+00 1de5A c.1.15.2 29394 2akzA 439 7.89e+00 1o7nA 449 8.05e+00 b.33.1.2,d.129.3.3 81162,81163 1ko6A 187 8.24e+00 b.119.1.1 77471 2a7mA 250 9.24e+00 1xbsA 149 9.57e+00 1wstA 417 1.03e+01 1q2lA 939 1.03e+01 1yb0A 159 1.07e+01 1xewY 172 1.09e+01 1u1hA 765 1.11e+01 c.1.22.2,c.1.22.2 107580,107581 1s2dA 167 1.12e+01 c.23.14.1 98377 1u1jA 765 1.16e+01 c.1.22.2,c.1.22.2 107590,107591 2av5A 120 1.21e+01 2g5cA 281 1.24e+01 1r5tA 142 1.27e+01 c.97.1.1 104812 2cxcA 144 1.48e+01 1u2zA 433 1.51e+01 c.66.1.31 107626 1ri7A 171 1.52e+01 a.4.5.32,d.58.4.2 97504,97505 1t3tA 1303 1.52e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1wvqA 167 1.56e+01 2bhuA 602 1.60e+01 1f2tB 148 1.63e+01 1f2tB 2eueA 279 1.65e+01 1u2wA 122 1.65e+01 1fzyA 149 1.65e+01 d.20.1.1 65072 1t8tA 271 1.66e+01 c.37.1.5 106685 1nrfA 262 1.70e+01 e.3.1.1 92086 1ursA 402 1.73e+01 c.94.1.1 99833 1pzxA 289 1.78e+01 c.119.1.1 95484 1ht6A 405 1.82e+01 b.71.1.1,c.1.8.1 83629,83630 1a0i 348 1.84e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1b7gO 340 1.84e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1yr0A 175 1.85e+01 1e5eA 404 1.86e+01 1ibjA c.67.1.3 59265 1k8rB 110 1.87e+01 d.15.1.5 72180 1geqA 248 1.88e+01 2tysA c.1.2.4 28589 1s96A 219 1.88e+01 c.37.1.1 98740 1eceA 358 1.93e+01 1eceA c.1.8.3 28813 1uwsA 489 1.94e+01 c.1.8.4 108073 1vqsA 116 1.97e+01 1wduA 245 1.99e+01 d.151.1.1 109286 1ltoA 245 2.00e+01 b.47.1.2 84707 2f5gA 133 2.01e+01 1fo8A 343 2.03e+01 1foaA c.68.1.10 59927 1r8sA 164 2.05e+01 c.37.1.8 97247 1yj7A 171 2.07e+01 1jx6A 342 2.08e+01 c.93.1.1 67406 2fuvA 549 2.18e+01 1yghA 164 2.23e+01 1yghA d.108.1.1 40802 1fsz 372 2.27e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1sviA 195 2.28e+01 c.37.1.8 106048 1zpvA 91 2.31e+01 1bf6A 291 2.34e+01 1pscA c.1.9.3 29065 2fliA 220 2.34e+01 1slqA 278 2.40e+01 f.47.1.1 105719 1gegA 256 2.41e+01 1ybvA c.2.1.2 29888 1frpA 335 2.43e+01 1frpA e.7.1.1 42875 1yloA 348 2.44e+01 1vr9A 213 2.52e+01 1q9uA 130 2.62e+01 d.129.7.1 96314 1d3yA 301 2.65e+01 1d3yA e.12.1.1 43252 2f9nA 245 2.68e+01 1lvwA 295 2.69e+01 c.68.1.6 84723 1fvgA 199 2.74e+01 1fvaA d.58.28.1 39408 1u7lA 392 2.77e+01 1id1A 153 2.79e+01 1id1A c.2.1.9 62286 4crxA 322 2.86e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 2faoA 309 2.89e+01 1i9gA 280 2.94e+01 c.66.1.13 62090 2c1lA 358 2.94e+01 2arhA 203 2.99e+01 1xhbA 472 3.00e+01 1jx2B 315 3.00e+01 c.37.1.8 67404 1b8oA 284 3.04e+01 1b8oA c.56.2.1 33762 1xdpA 687 3.10e+01 1j27A 102 3.10e+01 d.58.50.1 90778 1ve0A 134 3.15e+01 1jmtA 104 3.19e+01 d.58.7.3 63180 2an9A 207 3.20e+01 2cviA 83 3.26e+01 1h5rA 293 3.27e+01 c.68.1.6 65623 2av4A 162 3.28e+01 2fmr 65 3.29e+01 2fmr d.51.1.1 38808 1cvrA 435 3.30e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1dzkA 157 3.32e+01 1obpA b.60.1.1 27096 2fiqA 420 3.36e+01 1f52A 468 3.39e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1jmsA 381 3.45e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1fa0A 537 3.47e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1twfK 120 3.51e+01 1wqaA 455 3.52e+01 1rq2A 382 3.56e+01 c.32.1.1,d.79.2.1 105048,105049 1pcfA 66 3.57e+01 1pcfA d.18.1.1 38142 1gowA 489 3.57e+01 1qvbA c.1.8.4 28981 1tqjA 230 3.66e+01 c.1.2.2 107228 3pmgA 561 3.68e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2bo4A 397 3.77e+01 2f1rA 171 3.78e+01 1yckA 175 3.80e+01 1wnlA 235 3.83e+01 2bleA 367 3.86e+01 1rwzA 245 3.88e+01 d.131.1.2,d.131.1.2 98005,98006 1svy 114 3.96e+01 1svy d.109.1.1 40831 1xwsA 313 3.98e+01 2bikB 313 3.99e+01 1f44A 324 4.00e+01 a.60.9.1,d.163.1.1 64982,64983 1r5lA 262 4.02e+01 a.5.3.1,c.13.1.1 97099,97100 2ab5A 269 4.02e+01 1o3yA 166 4.02e+01 c.37.1.8 86618 1ef1C 90 4.03e+01 1ef1C a.137.5.1 19642 2h6dA 276 4.06e+01 1wi1A 126 4.07e+01 1pu1A 94 4.07e+01 d.266.1.1 104307 1h4pA 408 4.10e+01 c.1.8.3 90617 1cl1A 395 4.13e+01 1cl2A c.67.1.3 34395 1mml 265 4.16e+01 1mml e.8.1.2 43015 1pdz 434 4.16e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1i50K 120 4.19e+01 d.74.3.2 61765 1ooeA 236 4.21e+01 c.2.1.2 87196 1ws0A 156 4.22e+01 2b61A 377 4.34e+01 1tfr 305 4.35e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1k2fA 190 4.39e+01 b.8.1.2 68054 1k0fA 277 4.45e+01 c.92.2.2 71974 1b56 135 4.47e+01 1hmt b.60.1.2 27183 2glfA 450 4.58e+01 1i2aA 219 4.61e+01 e.24.1.1 90660 1ia9A 280 4.67e+01 1ia9A d.144.1.5 62113 1bykA 255 4.74e+01 1bykA c.93.1.1 35706 1zbsA 291 4.82e+01 2a5dA 175 4.84e+01 2b4aA 138 4.89e+01 2cpgA 45 4.97e+01 2cpgA a.43.1.3 17455 1zd9A 188 4.98e+01 1innA 166 4.99e+01 1j98A d.185.1.2 62608 1vjeA 166 5.00e+01 d.185.1.2 100807 1a05A 358 5.10e+01 1cnzA c.77.1.1 35059 1h6zA 913 5.15e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1nv8A 284 5.18e+01 c.66.1.30 86224 1s3zA 165 5.18e+01 d.108.1.1 105250 1bj7 156 5.22e+01 1bj7 b.60.1.1 27113 1mwmA 320 5.25e+01 c.55.1.1,c.55.1.1 79580,79581 1wn5A 130 5.27e+01 1g66A 207 5.28e+01 1bs9 c.69.1.30 31329 1bdfA 235 5.35e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1krhA 338 5.49e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2gcfA 73 5.50e+01 1n4qB 377 5.58e+01 a.102.4.3 91636 1aqb 183 5.61e+01 1aqb b.60.1.1 27084 1q7zA 566 5.62e+01 c.1.21.2,c.1.26.1 96090,96091 1lucA 355 5.69e+01 1lucA c.1.16.1 29547 1otjA 283 5.70e+01 b.82.2.5 93517 1wqwA 235 5.70e+01 1nrzA 164 5.74e+01 c.38.1.1 86131 1wyzA 242 5.82e+01 1g55A 343 5.84e+01 1g55A c.66.1.26 34247 2fv1A 377 5.92e+01 1vi4A 174 5.94e+01 c.8.7.1 100731 2fexA 188 6.00e+01 2es7A 142 6.02e+01 1xo0A 324 6.07e+01 1nslA 184 6.07e+01 d.108.1.1 86137 2fnjB 118 6.09e+01 1kt6A 183 6.09e+01 b.60.1.1 84466 1gewA 356 6.10e+01 1gewA c.67.1.1 60470 1kepA 348 6.14e+01 c.2.1.2 68536 2dbbA 151 6.22e+01 2cw5A 255 6.23e+01 1wmhB 86 6.25e+01 2bb3A 221 6.25e+01 1o4sA 389 6.30e+01 c.67.1.1 86620 1oc2A 348 6.31e+01 c.2.1.2 92765 2b7kA 200 6.38e+01 1ec7A 446 6.42e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1ob8A 135 6.49e+01 1qjcA 158 6.55e+01 1b6tA c.26.1.3 63328 1u6mA 199 6.59e+01 1lci 550 6.63e+01 1lci e.23.1.1 43349 1wggA 96 6.67e+01 1oaa 259 6.68e+01 1oaa c.2.1.2 29829 1ej1A 190 6.69e+01 1ejhA d.86.1.1 40144 2bitX 165 6.71e+01 1hbq 183 6.72e+01 1aqb b.60.1.1 27078 1uouA 474 6.82e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1vcbA 118 6.86e+01 1vcbA d.15.1.1 37603 2c1cA 312 6.90e+01 1nd4A 264 6.94e+01 d.144.1.6 91815 1ift 263 6.97e+01 1mrj d.165.1.1 42211 1i88A 389 7.02e+01 c.95.1.2,c.95.1.2 66070,66071 1i7nA 309 7.06e+01 c.30.1.5,d.142.1.3 83681,83682 1p9eA 331 7.14e+01 d.157.1.5 104088 1o58A 303 7.15e+01 c.79.1.1 92491 1htqA 477 7.16e+01 d.15.9.1,d.128.1.1 71035,71036 1n3bA 216 7.16e+01 c.37.1.1 79959 1o4yA 288 7.31e+01 b.29.1.2 92473 1fcdA 401 7.40e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1bi5A 389 7.42e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1l5xA 280 7.42e+01 c.106.1.1 77718 1z5oA 242 7.45e+01 1oqvA 192 7.47e+01 d.24.1.2 87320 1mumA 295 7.49e+01 c.1.12.7 85108 1np7A 489 7.56e+01 a.99.1.1,c.28.1.1 80677,80678 1v8hA 107 7.59e+01 1tvfA 369 7.59e+01 b.105.1.2,e.3.1.1 107358,107359 1x6mA 196 7.70e+01 1fg7A 356 7.85e+01 1gewA c.67.1.1 59819 1g3qA 237 7.86e+01 1hyqA c.37.1.10 60237 1ftrA 296 7.88e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1p0iA 529 7.90e+01 c.69.1.1 93867 1vk3A 615 7.91e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1j5yA 187 7.98e+01 a.4.5.1,d.94.2.1 71592,71593 3tmkA 216 8.01e+01 3tmkA c.37.1.1 31920 1uroA 367 8.05e+01 1uroA c.1.22.1 29675 1f2dA 341 8.14e+01 1f2dA c.79.1.1 35298 1r3sA 367 8.21e+01 c.1.22.1 96963 1yc5A 246 8.22e+01 1wwzA 159 8.23e+01 1cl8A 276 8.47e+01 1ckqA c.52.1.1 33230 2di4A 238 8.50e+01 1eu8A 409 8.58e+01 1eu8A c.94.1.1 59502 1bazA 53 8.60e+01 1bazA a.43.1.1 17421 1rz3A 201 8.67e+01 c.37.1.6 98132 2cbiA 594 8.68e+01 1rpxA 230 8.69e+01 1rpxA c.1.2.2 28536 1fxjA 331 8.70e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1yp2A 451 8.71e+01 1xg8A 111 8.73e+01 1wdjA 187 8.78e+01 1j7xA 302 8.81e+01 c.14.1.2 66425 1u8sA 192 8.85e+01 d.58.18.5,d.58.18.5 107737,107738 1efpB 252 8.86e+01 1efvB c.26.2.3 31636 1tljA 213 8.93e+01 d.282.1.1 107126 2f51A 118 8.95e+01 1hurA 180 8.95e+01 1hurA c.37.1.8 32052 1ztuA 341 8.99e+01