# List of top-scoring protein chains for t06-100-30-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 1vggA 161 1.66e-01 2gj8A 172 1.72e-01 1uirA 314 2.23e-01 c.66.1.17 99429 2fckA 181 3.86e-01 2al2A 436 6.10e-01 2al1A 436 6.24e-01 1oneA 436 6.53e-01 4enl c.1.11.1,d.54.1.1 29200,38844 1e9rA 437 1.07e+00 c.37.1.11 64827 1jztA 246 1.08e+00 c.104.1.1 63319 1ryiA 382 1.19e+00 1qo0D 196 1.29e+00 1qo0D c.23.1.3 31125 1vp4A 425 1.34e+00 1ht6A 405 1.73e+00 b.71.1.1,c.1.8.1 83629,83630 2akzA 439 2.00e+00 2ffuA 501 2.39e+00 1bqk 124 2.86e+00 1bqk b.6.1.1 22889 1ymqA 261 3.07e+00 1jmtA 104 3.07e+00 d.58.7.3 63180 2g5cA 281 3.14e+00 1yb0A 159 3.38e+00 1lc5A 364 3.40e+00 c.67.1.1 73827 1ursA 402 3.56e+00 c.94.1.1 99833 1ko6A 187 3.69e+00 b.119.1.1 77471 1o7nA 449 3.74e+00 b.33.1.2,d.129.3.3 81162,81163 1xewY 172 3.89e+00 2cxcA 144 4.95e+00 1qysA 106 4.96e+00 k.41.1.1 96603 2gzaA 361 5.01e+00 1gegA 256 5.13e+00 1ybvA c.2.1.2 29888 1yloA 348 5.19e+00 1fvgA 199 5.46e+00 1fvaA d.58.28.1 39408 1fcyA 236 5.53e+00 2lbd a.123.1.1 19282 1f2tB 148 6.35e+00 1f2tB 2a7mA 250 6.39e+00 1u7lA 392 6.66e+00 1r5tA 142 6.89e+00 c.97.1.1 104812 2arhA 203 7.79e+00 1w77A 228 7.94e+00 1xwyA 264 8.06e+00 1mml 265 9.00e+00 1mml e.8.1.2 43015 1r8sA 164 9.15e+00 c.37.1.8 97247 2glfA 450 9.24e+00 2a5dA 175 9.41e+00 1b8oA 284 9.59e+00 1b8oA c.56.2.1 33762 1s2dA 167 1.03e+01 c.23.14.1 98377 1pcfA 66 1.14e+01 1pcfA d.18.1.1 38142 1j27A 102 1.18e+01 d.58.50.1 90778 1jmsA 381 1.18e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1o3yA 166 1.20e+01 c.37.1.8 86618 2f5gA 133 1.20e+01 1v60A 123 1.24e+01 1vheA 373 1.28e+01 b.49.3.1,c.56.5.4 100669,100670 1s3zA 165 1.28e+01 d.108.1.1 105250 1ooeA 236 1.30e+01 c.2.1.2 87196 1wwzA 159 1.30e+01 2fuvA 549 1.32e+01 2fliA 220 1.34e+01 3pmgA 561 1.44e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2ajrA 331 1.45e+01 2ab5A 269 1.47e+01 2cpgA 45 1.53e+01 2cpgA a.43.1.3 17455 1pieA 419 1.54e+01 d.14.1.5,d.58.26.7 94706,94707 1tqjA 230 1.54e+01 c.1.2.2 107228 1d8wA 426 1.55e+01 1de5A c.1.15.2 29394 1k8rB 110 1.56e+01 d.15.1.5 72180 1twfK 120 1.56e+01 1iq8A 582 1.57e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1z4rA 168 1.66e+01 1wqaA 455 1.66e+01 2fexA 188 1.67e+01 1oz9A 150 1.67e+01 d.92.1.15 93808 1s96A 219 1.71e+01 c.37.1.1 98740 1g66A 207 1.72e+01 1bs9 c.69.1.30 31329 2ge3A 170 1.75e+01 1i52A 236 1.75e+01 1i52A c.68.1.13 61767 1rwzA 245 1.79e+01 d.131.1.2,d.131.1.2 98005,98006 1id1A 153 1.80e+01 1id1A c.2.1.9 62286 1i9gA 280 1.81e+01 c.66.1.13 62090 1xahA 354 1.82e+01 1wstA 417 1.84e+01 2b0jA 358 1.86e+01 1rq2A 382 1.88e+01 c.32.1.1,d.79.2.1 105048,105049 1zpvA 91 1.90e+01 2faoA 309 1.96e+01 2av4A 162 2.04e+01 1tvfA 369 2.06e+01 b.105.1.2,e.3.1.1 107358,107359 2av5A 120 2.09e+01 1h1nA 305 2.11e+01 c.1.8.3 70855 1m1hA 248 2.11e+01 b.114.1.1,d.58.42.1 78415,78416 2fsrA 195 2.14e+01 1t3tA 1303 2.15e+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 1bazA 53 2.16e+01 1bazA a.43.1.1 17421 2an9A 207 2.21e+01 1wvqA 167 2.27e+01 1krhA 338 2.33e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1pvvA 315 2.33e+01 c.78.1.1,c.78.1.1 95190,95191 1ztuA 341 2.40e+01 1mwmA 320 2.43e+01 c.55.1.1,c.55.1.1 79580,79581 1eceA 358 2.49e+01 1eceA c.1.8.3 28813 3tgl 269 2.52e+01 3tgl c.69.1.17 34733 1kyhA 276 2.60e+01 c.72.1.4 73222 1pzxA 289 2.61e+01 c.119.1.1 95484 1cl1A 395 2.63e+01 1cl2A c.67.1.3 34395 2bo4A 397 2.71e+01 1vi4A 174 2.71e+01 c.8.7.1 100731 1v8hA 107 2.73e+01 1fo8A 343 2.76e+01 1foaA c.68.1.10 59927 1n4qB 377 2.79e+01 a.102.4.3 91636 2czrA 226 2.83e+01 1cvrA 435 2.85e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1jysA 242 2.85e+01 c.56.2.1 77216 1u2zA 433 2.89e+01 c.66.1.31 107626 2cw5A 255 2.92e+01 2fy7A 287 2.96e+01 2cviA 83 2.98e+01 1wz8A 264 2.98e+01 2c1lA 358 3.02e+01 1t8tA 271 3.03e+01 c.37.1.5 106685 1rz3A 201 3.19e+01 c.37.1.6 98132 1q2lA 939 3.25e+01 1tfr 305 3.30e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1ef1C 90 3.34e+01 1ef1C a.137.5.1 19642 1xg8A 111 3.40e+01 1hqz1 141 3.40e+01 2akoA 251 3.48e+01 1yp2A 451 3.48e+01 1hfeL 421 3.60e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1oxxK 353 3.61e+01 b.40.6.3,c.37.1.12 93715,93716 1uh5A 329 3.66e+01 c.2.1.2 107840 1w8sA 263 3.76e+01 1bdfA 235 3.78e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 2fiqA 420 3.79e+01 1nd4A 264 3.81e+01 d.144.1.6 91815 2a1iA 146 3.81e+01 1ve0A 134 3.83e+01 1wn5A 130 3.83e+01 1g3qA 237 3.83e+01 1hyqA c.37.1.10 60237 1tcvA 287 3.86e+01 1iukA 140 3.88e+01 c.2.1.8 83712 3sdhA 146 3.88e+01 3sdhA a.1.1.2 14984 2es7A 142 3.93e+01 1dqpA 230 3.95e+01 1dqnA c.61.1.1 34069 2bfwA 200 3.95e+01 1o4yA 288 4.00e+01 b.29.1.2 92473 1wduA 245 4.10e+01 d.151.1.1 109286 1vjeA 166 4.15e+01 d.185.1.2 100807 1qahA 136 4.17e+01 d.79.1.1 96338 1w96A 554 4.21e+01 1wi1A 126 4.22e+01 1fg7A 356 4.22e+01 1gewA c.67.1.1 59819 2dbbA 151 4.22e+01 1wfyA 104 4.22e+01 1b56 135 4.25e+01 1hmt b.60.1.2 27183 2gcfA 73 4.29e+01 1yvoA 172 4.31e+01 1xreA 217 4.33e+01 1fcdA 401 4.38e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1ec7A 446 4.38e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1qwdA 177 4.46e+01 b.60.1.1 96471 1nv8A 284 4.49e+01 c.66.1.30 86224 1sh8A 154 4.50e+01 d.38.1.5 105549 1l5xA 280 4.52e+01 c.106.1.1 77718 1r5lA 262 4.53e+01 a.5.3.1,c.13.1.1 97099,97100 2b7kA 200 4.58e+01 2cxxA 190 4.63e+01 1ob8A 135 4.67e+01 7odcA 424 4.68e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1zejA 293 4.72e+01 1ws0A 156 4.73e+01 1y81A 138 4.74e+01 1k0fA 277 4.78e+01 c.92.2.2 71974 1qjcA 158 4.78e+01 1b6tA c.26.1.3 63328 1oc2A 348 4.81e+01 c.2.1.2 92765 1sviA 195 4.85e+01 c.37.1.8 106048 1c8cA 64 4.88e+01 1azpA b.34.13.1 59084 1jndA 420 4.94e+01 c.1.8.5,d.26.3.1 71757,71758 1wqwA 235 4.97e+01 1bykA 255 5.04e+01 1bykA c.93.1.1 35706 2bsxA 253 5.05e+01 1r6uA 437 5.05e+01 c.26.1.1 97163 1gefA 123 5.05e+01 1gefA c.52.1.18 60465 1yj7A 171 5.07e+01 1uwsA 489 5.08e+01 c.1.8.4 108073 1ef8A 261 5.12e+01 1ef8A c.14.1.3 30921 1l0wA 580 5.13e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1dzkA 157 5.17e+01 1obpA b.60.1.1 27096 1e8cA 498 5.18e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1sjiA 350 5.19e+01 1u2wA 122 5.20e+01 1ro5A 201 5.23e+01 d.108.1.3 105023 1wmhB 86 5.23e+01 1o4sA 389 5.27e+01 c.67.1.1 86620 1g55A 343 5.34e+01 1g55A c.66.1.26 34247 1np7A 489 5.44e+01 a.99.1.1,c.28.1.1 80677,80678 1b3aA 67 5.51e+01 1b3aA d.9.1.1 37410 1svy 114 5.52e+01 1svy d.109.1.1 40831 1vbkA 307 5.55e+01 2cxkA 95 5.56e+01 1geqA 248 5.57e+01 2tysA c.1.2.4 28589 1kv7A 488 5.58e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1f08A 148 5.60e+01 1f08A d.89.1.2 59564 2f51A 118 5.74e+01 1on0A 158 5.81e+01 d.108.1.1 87095 1i88A 389 5.82e+01 c.95.1.2,c.95.1.2 66070,66071 1wdjA 187 5.83e+01 1okgA 373 5.88e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1qf5A 431 5.96e+01 1adeA c.37.1.10 32212 1v4pA 157 5.97e+01 1n5nA 180 5.98e+01 d.167.1.1 85336 1zdnA 158 5.99e+01 1i12A 160 6.00e+01 1i21A d.108.1.1 61515 2ew8A 249 6.02e+01 1u04A 771 6.02e+01 b.34.14.1,c.55.3.10 107539,107540 1ywxA 102 6.02e+01 1yc5A 246 6.03e+01 1eejA 216 6.05e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1sw6A 327 6.12e+01 1sw6A d.211.1.1 19176 1vqsA 116 6.16e+01 2fv1A 377 6.21e+01 1gx3A 284 6.23e+01 d.3.1.5 70678 1rttA 193 6.41e+01 c.23.5.4 105098 2cunA 410 6.43e+01 1sgwA 214 6.43e+01 c.37.1.12 105541 1q4rA 112 6.46e+01 d.58.4.4 95823 2fymA 431 6.52e+01 1w6uA 302 6.53e+01 1vr9A 213 6.55e+01 1ro2A 216 6.56e+01 d.264.1.2 97665 1iq6A 134 6.58e+01 d.38.1.4 76755 1cl8A 276 6.59e+01 1ckqA c.52.1.1 33230 2g2cA 167 6.63e+01 1w5fA 353 6.67e+01 1edg 380 6.70e+01 1edg c.1.8.3 28807 2h6dA 276 6.76e+01 1wa3A 205 6.87e+01 1om1A 332 6.92e+01 d.144.1.7 93347 1c0pA 363 7.03e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1poiB 260 7.03e+01 1poiB c.124.1.3 34155 1q7zA 566 7.09e+01 c.1.21.2,c.1.26.1 96090,96091 1ftrA 296 7.12e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 2awpA 198 7.21e+01 1orsC 132 7.24e+01 f.14.1.1 87353 1w8iA 156 7.32e+01 1ja9A 274 7.36e+01 c.2.1.2 62817 2fb1A 226 7.37e+01 1otjA 283 7.40e+01 b.82.2.5 93517 1nrjB 218 7.40e+01 c.37.1.8 86125 2f4wA 187 7.55e+01 1yckA 175 7.56e+01 1m65A 245 7.63e+01 c.6.3.1 84847 1nofA 383 7.64e+01 b.71.1.2,c.1.8.3 92020,92021 1a4iA 301 7.73e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1xdpA 687 7.77e+01 2fa8A 105 7.83e+01 1g2rA 100 7.87e+01 1g2rA d.192.1.1 60231 2crvA 120 7.88e+01 1yr2A 741 7.95e+01 1mj5A 302 7.98e+01 c.69.1.8 91285 1vhwA 253 8.05e+01 c.56.2.1 100706 1p4fA 293 8.06e+01 d.144.1.7 104063 1z6nA 167 8.06e+01 1w5rA 278 8.16e+01 1xrtA 467 8.16e+01 1l4uA 176 8.19e+01 c.37.1.2 73568 1f35A 162 8.20e+01 1f35A b.94.1.1 59628 1h70A 255 8.20e+01 1h70A d.126.1.3 60711 1pot 325 8.21e+01 1pot c.94.1.1 35807 2ez3A 302 8.24e+01 1zd9A 188 8.25e+01 1ppjB 439 8.26e+01 d.185.1.1,d.185.1.1 104254,104255 1id0A 152 8.31e+01 d.122.1.3 66111 1it2A 146 8.40e+01 a.1.1.2 66365 1ro0A 216 8.41e+01 d.264.1.2 97664 1b25A 619 8.41e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1uekA 275 8.41e+01 d.14.1.5,d.58.26.5 88483,88484 1mqiA 263 8.46e+01 c.94.1.1 91398 1vkcA 158 8.46e+01 1pswA 348 8.46e+01 c.87.1.7 88287 1auiB 169 8.49e+01 1auiB a.39.1.5 17325 1jc4A 148 8.50e+01 1jc4A d.32.1.4 62863 1lhpA 312 8.51e+01 c.72.1.5 77960 1lk9A 448 8.55e+01 c.67.1.1 78057 1g0cA 364 8.56e+01 7a3hA c.1.8.3 60165 1mzbA 136 8.56e+01 a.4.5.42 91497 1in0A 163 8.65e+01 d.58.49.1,d.58.49.1 83694,83695 1kk1A 410 8.65e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1xc3A 302 8.74e+01 1v95A 130 8.78e+01 c.51.1.1 108435 2d1sA 548 8.87e+01 1vl5A 260 8.88e+01 c.66.1.41 108720 1yovA 537 8.88e+01 2g7jA 124 8.90e+01 2b61A 377 8.92e+01 1mhnA 59 8.95e+01 b.34.9.1 84964 2b0aA 186 8.96e+01 1x6mA 196 8.96e+01 1tc1A 220 8.96e+01 1tc1A c.61.1.1 34083 1l6sA 323 8.97e+01 c.1.10.3 73627