# 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 2gkeA 274 8.50e-04 1tm0A 350 9.17e-04 d.21.1.3 107147 1gqzA 274 1.24e-03 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 1.34e-03 1xubA 298 1.80e-03 1u1wA 298 2.48e-03 1bwzA 274 7.13e-03 1bwzA d.21.1.1,d.21.1.1 38337,38338 1t6kA 278 4.36e-02 1ym5A 300 1.38e-01 1o17A 345 1.72e-01 a.46.2.1,c.27.1.1 80765,80766 2b3nA 159 4.25e-01 1dkmA 410 4.65e-01 1dklA c.60.1.2 34000 1dkqA 410 6.53e-01 1dklA c.60.1.2 33998 1ixlA 131 8.38e-01 d.38.1.5 90717 1o0pA 104 9.37e-01 d.58.7.1 86535 1sr8A 298 1.19e+00 e.54.1.1 105959 1bupA 386 1.89e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1d0iA 156 1.89e+00 2dhqA c.23.13.1 31383 1azsB 212 1.92e+00 1azsA d.58.29.1 39423 1ycoA 279 1.93e+00 1kay 381 1.94e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1yqfA 203 2.81e+00 1gtzA 156 3.38e+00 c.23.13.1 70539 1z54A 132 3.77e+00 1ab8A 220 4.74e+00 1azsA d.58.29.1 39414 1wc3A 219 4.94e+00 1dazC 99 5.02e+00 1hvc b.50.1.1 26501 2azpA 318 5.03e+00 1oe4A 247 5.69e+00 c.18.1.3 86895 1xttA 216 5.99e+00 1qstA 160 6.05e+00 1yghA d.108.1.1 40804 1u9yA 284 7.81e+00 1vquA 374 7.85e+00 1yuwA 554 7.93e+00 1p3dA 475 7.95e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2b61A 377 8.34e+00 1vi6A 208 8.52e+00 c.23.15.1 100736 1vdkA 466 8.55e+00 a.127.1.1 100561 1prxA 224 8.64e+00 1prxA c.47.1.10 33076 1y9wA 140 9.12e+00 1m2oA 768 9.24e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1nnsA 326 1.01e+01 c.88.1.1 85910 2myr 501 1.04e+01 3tdt 274 1.09e+01 3tdt b.81.1.2 28053 1umkA 275 1.11e+01 1od3A 168 1.21e+01 b.18.1.10 86825 1s7jA 262 1.24e+01 d.21.1.2 98647 1y791 680 1.25e+01 1rl0A 255 1.26e+01 1o8bA 219 1.27e+01 c.124.1.4,d.58.40.1 81180,81181 1hzdA 272 1.28e+01 c.14.1.3 65969 1tdtA 259 1.32e+01 3tdt b.81.1.2 28055 1xtqA 177 1.33e+01 1dp4A 435 1.37e+01 1dp4A c.93.1.1 35710 1g5cA 170 1.41e+01 1g5cA c.53.2.1 60264 1ynfA 458 1.43e+01 1i7pA 274 1.45e+01 b.43.4.2,c.25.1.1 66048,66049 1nbwA 607 1.45e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1qjtA 99 1.49e+01 1eh2 a.39.1.6 17335 1khdA 345 1.51e+01 a.46.2.1,c.27.1.1 77400,77401 1wtaA 275 1.55e+01 1kkcA 221 1.57e+01 a.2.11.1,d.44.1.1 68660,68661 1qi7A 253 1.59e+01 1qi7A d.165.1.1 42210 1uurA 473 1.62e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1ogsA 497 1.62e+01 b.71.1.2,c.1.8.3 86997,86998 1psuA 140 1.65e+01 d.38.1.5 88285 1vh5A 148 1.66e+01 d.38.1.5 100642 2b0tA 738 1.69e+01 1jb7A 495 1.70e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 2fs2A 151 1.74e+01 1vpbA 451 1.74e+01 2cxcA 144 1.81e+01 2b6eA 146 1.88e+01 1zq1C 633 1.88e+01 1bvqA 141 1.88e+01 1bvqA d.38.1.1 38542 1tafB 70 1.90e+01 1tafB a.22.1.3 16482 1lp8A 254 1.90e+01 d.165.1.1 91082 1uf3A 228 1.91e+01 d.159.1.6 99317 1o7nA 449 1.91e+01 b.33.1.2,d.129.3.3 81162,81163 1giqA 413 1.95e+01 d.166.1.1,d.166.1.1 76224,76225 2aliA 158 1.99e+01 1q1rA 431 2.01e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1q15A 503 2.03e+01 c.26.2.1,d.153.1.1 95538,95539 1o0iA 138 2.06e+01 d.38.1.5 86532 1gv3A 248 2.07e+01 a.2.11.1,d.44.1.1 70585,70586 1o70A 324 2.09e+01 b.118.1.1,b.118.1.1 81115,81116 1h2eA 207 2.12e+01 c.60.1.1 70857 1zkiA 133 2.12e+01 1drw 273 2.12e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1gmuA 143 2.15e+01 b.107.1.1,d.58.38.1 65335,65336 2gjgA 248 2.16e+01 1ov3A 138 2.16e+01 b.34.2.1,b.34.2.1 87451,87452 1jf9A 408 2.17e+01 1c0nA c.67.1.3 62931 2f23A 156 2.23e+01 1iicA 422 2.28e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1e3pA 757 2.29e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1eg9A 449 2.31e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1kq3A 376 2.32e+01 e.22.1.2 68790 1mqvA 125 2.36e+01 a.24.3.2 79415 1ug1A 92 2.38e+01 b.34.2.1 99360 1dgfA 497 2.42e+01 1cf9A e.5.1.1 42782 1mngA 203 2.44e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1lm6A 215 2.56e+01 d.167.1.1 84628 1sk4A 163 2.60e+01 d.118.1.1 105664 1g0sA 209 2.64e+01 1g0sA d.113.1.1 60187 1pjcA 361 2.73e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 2bs3A 656 2.77e+01 1l0wA 580 2.86e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1ryiA 382 2.86e+01 2msbA 115 2.88e+01 1rtm1 d.169.1.1 42355 1zl0A 311 2.92e+01 1jj2P 95 2.95e+01 1ffkN b.34.5.1 63101 1z5hA 780 2.96e+01 1rzuA 485 2.96e+01 c.87.1.8 105140 1s72Q 96 2.97e+01 b.34.5.1 105336 1vqoQ 96 2.97e+01 1j5pA 253 3.07e+01 d.81.1.3,c.2.1.3 71577,83092 1i78A 297 3.08e+01 f.4.4.1 66046 2a9gA 418 3.09e+01 2an1A 292 3.10e+01 1atiA 505 3.13e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1k1xA 659 3.13e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2hrvA 142 3.18e+01 2hrvA b.47.1.4 26429 1sdjA 310 3.18e+01 d.21.1.2,d.21.1.2 98807,98808 1itwA 741 3.21e+01 c.77.1.2 76793 1difA 99 3.23e+01 1fmb b.50.1.1 26503 1l5oA 356 3.30e+01 c.39.1.1 77711 1f2rI 100 3.30e+01 1c9fA d.15.2.1 37641 2b5wA 357 3.38e+01 1fnnA 389 3.46e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1lo7A 141 3.50e+01 d.38.1.1 74144 2h0bA 184 3.56e+01 1yghA 164 3.57e+01 1yghA d.108.1.1 40802 2f4pA 147 3.61e+01 1qlaA 656 3.61e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1w19A 160 3.70e+01 1ymmB 198 3.83e+01 1kc6A 257 3.89e+01 c.52.1.19 68419 1qx4A 274 3.91e+01 b.43.4.2,c.25.1.1 104624,104625 2a8yA 270 3.93e+01 2g84A 197 3.94e+01 1ui8A 638 4.00e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 2h4uA 145 4.02e+01 2ghpA 292 4.02e+01 1ndh 272 4.04e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1e4mM 501 4.16e+01 1e70M c.1.8.4 59226 1nh0A 99 4.19e+01 b.50.1.1 91869 2c8mA 262 4.23e+01 1w6gA 646 4.24e+01 1onqA 283 4.24e+01 b.1.1.2,d.19.1.1 93365,93366 1k0eA 453 4.25e+01 d.161.1.1 67938 1wab 232 4.26e+01 1wab c.23.10.3 31341 1xhkA 187 4.28e+01 1cl8A 276 4.31e+01 1ckqA c.52.1.1 33230 1srqA 341 4.36e+01 e.55.1.1 105967 1ng4A 390 4.37e+01 c.3.1.2,d.16.1.3 85666,85667 1zcjA 463 4.37e+01 1zq7A 207 4.38e+01 1h9dB 134 4.48e+01 2jhbA b.54.1.1 60822 1oj6A 151 4.54e+01 a.1.1.2 93088 2dbbA 151 4.62e+01 1kzkA 99 4.66e+01 b.50.1.1 73371 1rsy 152 4.71e+01 1rsy b.7.1.2 23192 2aneA 125 4.81e+01 1h65A 270 4.84e+01 c.37.1.8 65640 2audA 257 4.85e+01 1wleA 501 4.90e+01 1tu1A 148 4.91e+01 d.107.1.3 107316 1xhvA 257 4.92e+01 c.52.1.19 109597 1htyA 1015 4.98e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 2arsA 262 5.00e+01 1gk8I 140 5.06e+01 d.73.1.1 65242 1lshA 1056 5.07e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1jc9A 269 5.17e+01 d.171.1.1 66490 2bz6H 254 5.18e+01 1evhA 112 5.22e+01 1evhA b.55.1.4 26997 1mxmA 254 5.22e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1yphC 131 5.29e+01 1kliH 254 5.32e+01 b.47.1.2 77435 2essA 248 5.40e+01 1lyqA 104 5.42e+01 b.1.18.17 78302 2acfA 182 5.48e+01 1xizA 159 5.51e+01 1qwkA 317 5.52e+01 c.1.7.1 96482 2fnaA 357 5.53e+01 1zvpA 133 5.57e+01 2b25A 336 5.57e+01 2aioA 269 5.60e+01 1ng2A 193 5.63e+01 b.34.2.1,b.34.2.1 85660,85661 1dpgA 485 5.76e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1wekA 217 5.77e+01 1rtm1 149 5.81e+01 1rtm1 1d0vA 356 5.90e+01 1d0vA c.39.1.1 32476 1pysA 350 6.03e+01 1pysA d.104.1.1 40775 1a8i 842 6.08e+01 1a8i c.87.1.4 35490 1r5eA 115 6.13e+01 1oruA 195 6.15e+01 b.58.1.2 93464 1m7sA 484 6.15e+01 e.5.1.1 74574 1f3uA 118 6.17e+01 1f3uA b.65.1.1 27521 1hf2A 210 6.26e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1ri5A 298 6.28e+01 c.66.1.34 97502 1smlA 269 6.29e+01 1smlA d.157.1.1 42053 1wdvA 152 6.37e+01 1mjc 69 6.38e+01 1mjc b.40.4.5 25319 1fs5A 266 6.42e+01 c.124.1.1 65044 1ekjA 221 6.45e+01 1ekjB c.53.2.1 33364 1q3iA 214 6.47e+01 d.220.1.1 104524 1w77A 228 6.47e+01 2ga9D 469 6.49e+01 2f8mA 244 6.49e+01 1josA 128 6.50e+01 d.52.7.1 84191 1j5yA 187 6.59e+01 a.4.5.1,d.94.2.1 71592,71593 1u7nA 336 6.63e+01 c.77.1.4 107726 2aieP 203 6.66e+01 1hp1A 516 6.76e+01 d.114.1.1,d.159.1.2 70976,70977 1zm0A 114 6.81e+01 1wpgA 994 6.87e+01 1svy 114 6.91e+01 1svy d.109.1.1 40831 2g6yA 217 6.95e+01 1pyoA 167 7.06e+01 c.17.1.1 95370 2fvhA 120 7.11e+01 1llp 343 7.13e+01 1arv a.93.1.1 18578 1izmA 184 7.15e+01 a.199.1.1 90725 1g2bA 62 7.17e+01 1tud b.34.2.1 24488 2fr2A 172 7.24e+01 2af4C 333 7.25e+01 1tzjA 338 7.27e+01 1h8eA 510 7.33e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1wxxA 382 7.38e+01 2fsjA 346 7.43e+01 1u55A 188 7.45e+01 d.278.1.1 107677 1oo0A 147 7.45e+01 d.232.1.1 87182 2etvA 346 7.46e+01 1w96A 554 7.46e+01 1ew2A 513 7.46e+01 1b8jA c.76.1.1 59525 1u24A 337 7.48e+01 1z5lA 285 7.57e+01 1nt4A 391 7.69e+01 c.60.1.2 92102 1lox 662 7.69e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1g7sA 594 7.73e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1ir21 140 7.77e+01 2cx7A 130 7.79e+01 1es9A 232 7.81e+01 1wab c.23.10.3 31340 1zh5A 195 7.87e+01 1q6hA 224 7.88e+01 d.26.1.1 95975 2a2nA 176 7.92e+01 1jihA 531 7.97e+01 d.240.1.1,e.8.1.7 90374,90375 1v8gA 329 7.97e+01 a.46.2.1,c.27.1.1 100505,100506 1eulA 994 7.98e+01 1eulA 1ejeA 192 7.98e+01 1ejeA b.45.1.2 25757 1vl2A 421 8.00e+01 c.26.2.1,d.210.1.1 108708,108709 1vliA 385 8.00e+01 b.85.1.1,c.1.10.6 108830,108831 1uebA 184 8.01e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1dmhA 311 8.04e+01 1dmhA b.3.6.1 22633 1r45A 204 8.09e+01 1yc9A 442 8.20e+01 1i7oA 429 8.22e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1iqyA 638 8.25e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1tcvA 287 8.30e+01 1danH 254 8.40e+01 5ptp b.47.1.2 26292 1t6aA 126 8.44e+01 d.129.8.1 106555 1q1fA 151 8.55e+01 a.1.1.2 104476 1evlA 401 8.56e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1q4gA 553 8.61e+01 a.93.1.2,g.3.11.1 95789,95790 1ush 550 8.66e+01 1ush d.114.1.1,d.159.1.2 40923,42079 2d0oA 610 8.68e+01 1wudA 89 8.78e+01 2aaa 484 8.81e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1gg6B 131 8.91e+01 5ptp 1vhzA 198 8.93e+01 d.113.1.1 100718 2if1 126 8.94e+01 2if1 d.64.1.1 39547