# 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 1zpwX 90 6.31e-17 1vdxA 184 1.89e-03 1ydyA 356 2.61e-03 1t8qA 336 3.53e-03 c.1.18.3 106669 1oz9A 150 3.86e-03 d.92.1.15 93808 1vgjA 184 5.40e-03 1fmcA 255 6.20e-02 1cydA c.2.1.2 29856 1v5iB 76 8.82e-02 1ta9A 450 1.55e-01 1iv8A 720 4.78e-01 b.71.1.1,c.1.8.1 76842,76843 1han 297 6.42e-01 1han d.32.1.3,d.32.1.3 38506,38507 1lkdA 297 7.05e-01 d.32.1.3,d.32.1.3 78059,78060 2awdA 323 8.03e-01 2ge3A 170 9.01e-01 2f02A 323 9.26e-01 1xg5A 279 1.01e+00 1eyqA 222 1.12e+00 1eypA d.36.1.1 38534 1w1oA 534 1.29e+00 d.58.32.4,d.145.1.1 109071,109072 1wvqA 167 1.66e+00 1vllA 334 1.82e+00 c.2.1.13 108834 1vb3A 428 1.95e+00 1gz2A 142 2.04e+00 d.169.1.1 83392 1aisA 182 2.07e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1sqgA 429 2.14e+00 a.79.1.3,c.66.1.38 105912,105913 1iv3A 152 2.26e+00 d.79.5.1 76828 1rlhA 173 2.41e+00 d.256.1.1 97646 1vmiA 355 2.48e+00 2abqA 306 2.48e+00 2ae2A 260 2.50e+00 1bdb c.2.1.2 29945 1gyxA 76 2.61e+00 d.80.1.1 76387 1m7bA 184 2.72e+00 c.37.1.8 74572 2fq3A 104 2.91e+00 1us5A 314 2.93e+00 c.94.1.1 99856 1isiA 265 3.14e+00 e.4.1.1 71394 5csmA 256 3.44e+00 5csmA a.130.1.2 19494 1kqpA 271 3.56e+00 c.26.2.1 72883 1ih8A 271 3.56e+00 2nsyA c.26.2.1 62377 2b9eA 303 4.01e+00 1hxhA 253 4.25e+00 c.2.1.2 76725 1omoA 322 4.26e+00 c.2.1.13 104017 2c3zA 222 4.27e+00 2axiA 115 4.30e+00 2bkaA 242 4.67e+00 1jsxA 207 4.77e+00 c.66.1.20 71846 1oapA 109 4.94e+00 d.79.7.1 92706 1kay 381 5.61e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1j93A 353 5.74e+00 c.1.22.1 66454 1rqbA 539 5.88e+00 a.5.7.2,c.1.10.5 105057,105058 1wnaA 131 5.91e+00 1bupA 386 6.23e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1afwA 393 6.38e+00 1afwA c.95.1.1,c.95.1.1 35900,35901 1igs 248 6.45e+00 1a53 c.1.2.4 28565 1ohvA 472 6.59e+00 c.67.1.4 93031 1wnfA 328 7.10e+00 1a53 247 7.17e+00 1a53 c.1.2.4 28564 2bx6A 350 7.21e+00 1vl4A 447 7.53e+00 d.283.1.1 108718 2ck3D 482 7.58e+00 1r2qA 170 7.71e+00 c.37.1.8 96874 1pbuA 162 7.78e+00 d.58.46.1 88030 1nmeA 146 7.83e+00 c.17.1.1 85874 1h4vB 421 7.86e+00 1adjA c.51.1.1,d.104.1.1 60624,60625 1ho1A 242 8.24e+00 1ho1A c.1.24.1 61097 1qysA 106 8.24e+00 k.41.1.1 96603 1h8eD 482 8.44e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 2fiuA 99 8.45e+00 1adjA 421 8.96e+00 1adjA c.51.1.1,d.104.1.1 33188,40737 1z5yE 149 9.11e+00 1vjlA 164 9.11e+00 d.257.1.1 100822 1vkkA 154 9.16e+00 d.109.1.2 108669 1vm6A 228 9.48e+00 c.2.1.3,d.81.1.3 108876,108877 1ukvY 206 9.69e+00 c.37.1.8 107918 1ixkA 315 1.01e+01 c.66.1.38 90716 1uw1A 80 1.02e+01 k.42.1.1 100069 2ebn 289 1.03e+01 2ebn c.1.8.5 28990 1xqiA 195 1.05e+01 1m5wA 243 1.06e+01 c.1.24.1 84836 1mp4A 292 1.06e+01 c.68.1.6 79376 1e79D 482 1.09e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1id1A 153 1.12e+01 1id1A c.2.1.9 62286 1pl8A 356 1.15e+01 b.35.1.2,c.2.1.1 94878,94879 1uu1A 335 1.17e+01 c.67.1.1 99993 1ytfB 53 1.17e+01 1ytfB a.32.1.1 16997 1ja9A 274 1.19e+01 c.2.1.2 62817 1u0kA 288 1.20e+01 d.21.1.2,d.21.1.2 107547,107548 1t4fM 110 1.22e+01 1wzcA 249 1.22e+01 1huqA 164 1.22e+01 1byuA c.37.1.8 32020 1nbwB 117 1.24e+01 c.51.3.2 80396 2gq1A 332 1.24e+01 1regX 122 1.32e+01 1regX d.58.27.1 39406 1m7vA 363 1.33e+01 d.174.1.1 78748 1sr9A 644 1.37e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1z08A 170 1.38e+01 1azo 232 1.39e+01 1azo c.52.1.14 33329 2c07A 285 1.44e+01 1qu9A 128 1.48e+01 1qu9A d.79.1.1 39755 1mxiA 160 1.50e+01 c.116.1.1 79646 1jh6A 189 1.56e+01 d.61.1.1 66707 1r0mA 375 1.57e+01 c.1.11.2,d.54.1.1 104747,104748 1zxmA 400 1.60e+01 1cs1A 386 1.61e+01 1ibjA c.67.1.3 34399 1thg 544 1.64e+01 1thg c.69.1.17 34763 1bc5A 269 1.65e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1tu5A 746 1.68e+01 2ez3A 302 1.70e+01 1hy0A 466 1.73e+01 1auwA a.127.1.1 61392 1af7 274 1.78e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1e0cA 271 1.78e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1fo1A 271 1.81e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1vheA 373 1.81e+01 b.49.3.1,c.56.5.4 100669,100670 1k5nA 276 1.81e+01 b.1.1.2,d.19.1.1 77266,77267 1t6nA 220 1.82e+01 c.37.1.19 106576 1h5rA 293 1.84e+01 c.68.1.6 65623 1bpoA 494 1.86e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1pjcA 361 1.88e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1fsiA 189 1.88e+01 1fsiA d.61.1.1 39536 1dqpA 230 1.89e+01 1dqnA c.61.1.1 34069 1z3eA 132 1.90e+01 2cx1A 187 1.95e+01 1m1eB 81 1.96e+01 a.161.1.1 78400 2a5jA 191 1.97e+01 1j57A 143 1.98e+01 d.221.1.1 77079 1v7rA 186 1.99e+01 c.51.4.1 100482 1h3oA 75 2.01e+01 a.22.1.3 76644 2bcgY 206 2.02e+01 1nh2B 53 2.03e+01 a.32.1.1 91874 1zq9A 285 2.04e+01 1s5jA 847 2.07e+01 1ugjA 141 2.11e+01 b.41.1.3 107826 1fseA 74 2.13e+01 1fseA a.4.6.2 60000 2bvpA 276 2.15e+01 2comA 124 2.18e+01 1h65A 270 2.19e+01 c.37.1.8 65640 1zowA 313 2.20e+01 1xu9A 286 2.21e+01 1v6fA 151 2.23e+01 d.109.1.2 108395 1wlsA 328 2.25e+01 1y74A 57 2.31e+01 1c93A 265 2.32e+01 2ebn c.1.8.5 28998 1mwwA 128 2.35e+01 d.80.1.4 91483 1k7wA 468 2.37e+01 a.127.1.1 72130 2h1rA 299 2.39e+01 1kw3B 292 2.41e+01 d.32.1.3,d.32.1.3 77549,77550 1tjvA 474 2.42e+01 a.127.1.1 107054 2absA 383 2.42e+01 2ethA 154 2.43e+01 2bgkA 278 2.43e+01 1ughI 82 2.44e+01 1ugiA d.17.5.1 38133 1vl5A 260 2.45e+01 c.66.1.41 108720 1c0pA 363 2.47e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1go3F 107 2.48e+01 a.60.8.2 65407 1n0wA 243 2.48e+01 c.37.1.11 79772 1xseA 295 2.51e+01 1qsgA 265 2.51e+01 1eny c.2.1.2 29935 1u04A 771 2.64e+01 b.34.14.1,c.55.3.10 107539,107540 1b67A 68 2.78e+01 1a7w a.22.1.2 16474 2a5hA 416 2.79e+01 1dqnA 230 2.82e+01 1dqnA c.61.1.1 34067 1womA 271 2.85e+01 3rabA 169 2.86e+01 1ctqA c.37.1.8 32018 2ak5A 64 2.87e+01 1mo9A 523 2.90e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1tw4A 125 3.01e+01 2bmeA 186 3.01e+01 1aua 296 3.08e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1xwoA 465 3.12e+01 1j0dA 341 3.14e+01 c.79.1.1 83902 2bg1A 494 3.15e+01 1kq3A 376 3.17e+01 e.22.1.2 68790 1t6lA 290 3.18e+01 d.131.1.2,d.131.1.2 106574,106575 1l6rA 227 3.18e+01 c.108.1.10 77768 1a2zA 220 3.19e+01 1a2zA c.56.4.1 33794 1r5jA 337 3.22e+01 c.77.1.5 97097 1dt9A 437 3.24e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 2aexA 346 3.24e+01 2ao0A 324 3.24e+01 1qnf 484 3.24e+01 1qnf a.99.1.1,c.28.1.1 18777,31632 1vm8A 534 3.25e+01 1f2dA 341 3.29e+01 1f2dA c.79.1.1 35298 2g6fX 59 3.32e+01 1fjgM 126 3.32e+01 1fjfM a.156.1.1 16293 1pvgA 418 3.35e+01 d.14.1.3,d.122.1.2 95161,95162 1y5mA 276 3.39e+01 1xh3A 276 3.39e+01 4tmkA 213 3.41e+01 5tmpA c.37.1.1 31930 1rq2A 382 3.47e+01 c.32.1.1,d.79.2.1 105048,105049 1zs7A 190 3.49e+01 1lj8A 493 3.50e+01 a.100.1.9,c.2.1.6 90392,90393 1oaoC 729 3.55e+01 e.26.1.3 86746 2b3yA 888 3.64e+01 1sh8A 154 3.67e+01 d.38.1.5 105549 1jcfA 344 3.67e+01 c.55.1.1,c.55.1.1 62878,62879 2ao9A 155 3.68e+01 1e5rA 290 3.71e+01 1e5rA b.82.2.4 59276 1n7kA 234 3.72e+01 c.1.10.1 85374 1gowA 489 3.73e+01 1qvbA c.1.8.4 28981 1sfjA 238 3.81e+01 1fcjA 322 3.83e+01 1oasA c.79.1.1 35289 1jbiA 100 3.85e+01 d.209.1.1 66481 1uv7A 110 3.85e+01 d.67.4.1 100040 1vi1A 345 3.88e+01 c.77.1.4 100724 1dd9A 338 3.91e+01 1dd9A e.13.1.1 43254 1a73A 163 3.92e+01 1a73A d.4.1.3 37145 1o5oA 221 4.01e+01 c.61.1.1 92509 1xkqA 280 4.01e+01 1wn2A 121 4.02e+01 1a9xB 379 4.04e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 2azeB 106 4.05e+01 1g6sA 427 4.06e+01 1eps d.68.2.2 39584 2gdzA 267 4.08e+01 1vcvA 226 4.10e+01 1twuA 139 4.10e+01 d.32.1.8 107413 1t0yA 122 4.11e+01 d.15.1.1 99066 1evxA 162 4.12e+01 1a73A d.4.1.3 37149 2fbjL 213 4.13e+01 8fabA b.1.1.1,b.1.1.2 19850,20954 1ylhA 560 4.18e+01 1y9iA 178 4.19e+01 1l1eA 287 4.20e+01 c.66.1.18 73454 1l1lA 739 4.22e+01 c.7.1.4 73470 1uv0A 149 4.33e+01 d.169.1.1 100028 1qsoA 149 4.33e+01 1qsmA d.108.1.1 40812 1y14A 187 4.36e+01 1u7iA 136 4.44e+01 d.32.1.7 107724 1jflA 228 4.48e+01 c.78.2.1,c.78.2.1 71656,71657 1lz1 130 4.49e+01 3lzt d.2.1.2 36415 1tvlA 454 4.50e+01 c.1.16.4 107366 1k7kA 221 4.60e+01 c.51.4.1 72104 1zlmA 58 4.60e+01 1cx4A 305 4.65e+01 b.82.3.2,b.82.3.2 59099,59100 1y8cA 246 4.70e+01 1zljA 78 4.71e+01 1dmhA 311 4.75e+01 1dmhA b.3.6.1 22633 1qd9A 124 4.75e+01 1qu9A d.79.1.1 39758 1vmaA 306 4.76e+01 a.24.13.1,c.37.1.10 108887,108888 2gf9A 189 4.76e+01 1rypH 205 4.76e+01 d.153.1.4 41876 1lfpA 249 4.77e+01 e.39.1.1 73885 1ff9A 450 4.80e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1q9uA 130 4.81e+01 d.129.7.1 96314 1n12A 138 4.84e+01 b.2.3.2 79779 1qopB 396 4.85e+01 2tysB c.79.1.1 35270 1seiA 130 4.85e+01 1seiA d.140.1.1 41463 1zj8A 566 4.93e+01 1s99A 200 4.95e+01 1nox 205 4.98e+01 1nox d.90.1.1 40242 1vjtA 483 4.98e+01 c.2.1.5,d.162.1.2 100833,100834 1m6yA 301 5.01e+01 a.60.13.1,c.66.1.23 78716,78717 1kkhA 317 5.02e+01 d.14.1.5,d.58.26.3 72645,72646 1ss9A 311 5.06e+01 c.68.1.4 105978 1pq1A 196 5.13e+01 f.1.4.1 94986 1j5vA 351 5.14e+01 c.72.1.1 71585 5ukdA 194 5.21e+01 1zin c.37.1.1 31851 1c1yB 77 5.23e+01 1c1yB d.15.1.5 37618 2fafA 608 5.31e+01 1yiyA 429 5.32e+01 1utcA 363 5.34e+01 a.118.1.4,b.69.6.1 99914,99915 1mp9A 198 5.40e+01 d.129.1.1,d.129.1.1 91385,91386 1t6t1 118 5.44e+01 1e5mA 416 5.44e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1ef8A 261 5.53e+01 1ef8A c.14.1.3 30921 1vmbA 140 5.57e+01 1jljA 189 5.58e+01 c.57.1.1 63169 1ihcA 188 5.60e+01 1di6A c.57.1.1 62379 1w66A 232 5.62e+01 2ftbA 125 5.65e+01 1otfA 62 5.67e+01 1otfA d.80.1.1 39820 1cczA 171 5.72e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 1rdr 461 5.75e+01 1rdr e.8.1.4 43116 1td5A 202 5.76e+01 d.110.2.2 106767 1sqwA 188 5.78e+01 1ykdA 398 5.81e+01 1jsf 130 5.81e+01 3lzt d.2.1.2 36410 1s3jA 155 5.93e+01 a.4.5.28 98437 2aorA 223 5.95e+01 1eziA 228 6.00e+01 1eyrA c.68.1.13 34512 1zcoA 262 6.00e+01 1xc3A 302 6.02e+01 1yizA 429 6.02e+01 2b5wA 357 6.09e+01 2a2dA 478 6.12e+01 1ga8A 311 6.17e+01 1ga8A c.68.1.4 34516 1k66A 149 6.19e+01 c.23.1.1 90941 1yzfA 195 6.22e+01 1ej5A 107 6.27e+01 1ej5A a.68.1.1 18268 1fx2A 235 6.27e+01 1fx2A d.58.29.1 39430 1qf9A 194 6.29e+01 1zin c.37.1.1 31848 1wy1A 172 6.31e+01 1uurA 473 6.31e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1bzyA 217 6.31e+01 1qk3A c.61.1.1 34071 1w30A 201 6.31e+01 1tw0A 157 6.32e+01 1z7xW 461 6.32e+01 1t7lA 766 6.33e+01 1owlA 484 6.40e+01 a.99.1.1,c.28.1.1 93647,93648 1q15A 503 6.42e+01 c.26.2.1,d.153.1.1 95538,95539 1jclA 260 6.46e+01 c.1.10.1 66501 1g8aA 227 6.59e+01 c.66.1.3 90506 1okhA 46 6.59e+01 g.13.1.1 93253 1ryoA 327 6.59e+01 c.94.1.2 98108 1xfxO 149 6.60e+01 1o63A 219 6.61e+01 c.94.1.1 92540 1zt2B 212 6.61e+01 1wxdA 263 6.62e+01 1p1xA 260 6.62e+01 c.1.10.1 104060 2bh7A 261 6.64e+01 1pmzA 86 6.66e+01 a.39.1.10 104195 2fpmA 322 6.73e+01 1vl8A 267 6.82e+01 c.2.1.2 108733 2a2cA 478 6.86e+01 1yzyA 413 6.89e+01 1v6zA 228 6.90e+01 1u6zA 513 6.90e+01 2bl0C 142 6.97e+01 2gdjA 264 7.04e+01 1yxmA 303 7.07e+01 2aeuA 374 7.07e+01 1j5yA 187 7.08e+01 a.4.5.1,d.94.2.1 71592,71593 1n9lA 109 7.09e+01 d.110.3.6 85468 1yg9A 330 7.15e+01 1sjdA 368 7.18e+01 c.1.11.2,d.54.1.1 105632,105633 1tt7A 330 7.24e+01 1lq9A 112 7.24e+01 d.58.4.3 78129 1vmjA 151 7.26e+01 1wy0A 342 7.34e+01 1gdeA 389 7.36e+01 c.67.1.1 60456 2gw8A 114 7.40e+01 1o4sA 389 7.40e+01 c.67.1.1 86620 2bjbA 462 7.43e+01 1g6uA 48 7.44e+01 1g6uA k.9.1.1 46425 1wu7A 434 7.54e+01 2d5cA 263 7.55e+01 2beiA 170 7.56e+01 2rhe 114 7.59e+01 8fabA b.1.1.1 20523 1pz4A 116 7.67e+01 d.106.1.1 95400 2gu3A 136 7.67e+01 1tca 317 7.69e+01 1tca c.69.1.17 34726 1gca 309 7.69e+01 1gca c.93.1.1 35659 1uz5A 402 7.74e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1a8vA 121 7.79e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1r4pA 297 7.79e+01 d.165.1.2 97025 1sflA 238 7.79e+01 1gjwA 637 7.91e+01 b.71.1.1,c.1.8.1 60582,60583 1s7hA 200 7.94e+01 d.58.48.2 105349 2gv8A 447 7.96e+01 1uekA 275 7.97e+01 d.14.1.5,d.58.26.5 88483,88484 1d5qA 27 7.99e+01 k.23.1.2 46454 2cfxA 144 8.02e+01 2cy0A 263 8.02e+01 1j3mA 129 8.05e+01 d.129.7.1 103836 1mba 147 8.05e+01 2fal a.1.1.2 15149 1go4A 205 8.08e+01 d.135.1.1 70292 1vqwA 457 8.11e+01 1liiA 363 8.11e+01 c.72.1.1 73921 1tvzA 388 8.12e+01 c.95.1.2,c.95.1.2 107367,107368 1sc3A 178 8.14e+01 c.17.1.1 105416 2bgcA 238 8.17e+01 1qz5A 375 8.22e+01 c.55.1.1,c.55.1.1 96614,96615 1c30B 382 8.27e+01 c.8.3.1,c.23.16.1 30736,31413 1lb2B 84 8.28e+01 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