# List of top-scoring protein chains for t06-100-30-bys-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 1wkrA 340 1.79e-01 b.50.1.2 109395 1el6A 219 4.56e-01 1el6B d.182.1.1 42606 1snrA 341 5.14e-01 b.6.1.3,b.6.1.3 105823,105824 1ga6A 372 5.32e-01 1ga1A c.41.1.2 32556 1ev7A 317 8.22e-01 1ev7B c.52.1.9 33315 1gj7B 253 9.28e-01 4ubpA 101 1.04e+00 1ubpA d.8.1.1 37352 1ic6A 279 1.18e+00 1gci c.41.1.1 62257 1d2tA 231 1.28e+00 1d2tA a.111.1.1 19052 1jnrA 643 1.38e+00 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1gvkB 240 2.01e+00 b.47.1.2 70610 1se8A 301 2.34e+00 b.40.4.3 105448 1vhsA 175 2.64e+00 d.108.1.1 100698 1p1mA 406 2.67e+00 b.92.1.4,c.1.9.9 87696,87697 1juvA 193 2.70e+00 c.71.1.1 90912 1iv3A 152 2.74e+00 d.79.5.1 76828 1jsdA 319 3.15e+00 b.19.1.2 63258 1nykA 165 3.34e+00 b.33.1.1 86408 1rqpA 299 3.70e+00 b.141.1.1,c.132.1.1 97754,97755 1iyeA 309 4.02e+00 e.17.1.1 83786 1hnr 47 4.06e+00 1hnr a.155.1.1 17896 1eu3A 210 4.09e+00 1an8 b.40.2.2,d.15.6.1 25206,37795 2biiA 424 4.23e+00 1pv5A 264 4.24e+00 d.251.1.1 95150 1dyqA 234 4.27e+00 3seb b.40.2.2,d.15.6.1 59140,59141 1jtdB 273 4.51e+00 b.69.5.2 67265 1hpi 71 4.97e+00 1ckuA g.35.1.1 44995 1vjvA 415 5.45e+00 d.3.1.9 108632 1s3eA 520 5.48e+00 c.3.1.2,d.16.1.5 98426,98427 1j96A 323 5.51e+00 c.1.7.1 71616 1ejxA 100 6.33e+00 d.8.1.1 83182 1iqqA 200 6.54e+00 d.124.1.1 66274 1ahsA 126 6.56e+00 1ahsA b.19.1.1 23794 1ecfA 504 7.12e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1hh8A 213 7.34e+00 1e96B a.118.8.1 61042 1y4wA 518 7.65e+00 1jsmA 325 8.61e+00 b.19.1.2 63264 1jb7B 260 9.23e+00 1otcB b.40.4.3 62839 1us0A 316 1.01e+01 c.1.7.1 99850 1ej6B 1275 1.04e+01 i.7.1.1 45968 1e9gA 286 1.08e+01 1wgjA b.40.5.1 59393 1o54A 277 1.12e+01 c.66.1.13 92482 1elt 236 1.16e+01 5ptp b.47.1.2 26281 1dleA 298 1.16e+01 1dleA b.47.1.2 26312 1ixkA 315 1.19e+01 c.66.1.38 90716 1ckeA 227 1.27e+01 1ckeA c.37.1.1 31846 1geeA 261 1.29e+01 c.2.1.2 90509 1i1wA 303 1.30e+01 c.1.8.3 76732 1jyhA 157 1.31e+01 d.60.1.3 71956 1gy7A 125 1.32e+01 d.17.4.2 70738 1o7nA 449 1.34e+01 b.33.1.2,d.129.3.3 81162,81163 1v5vA 401 1.35e+01 1im3D 95 1.39e+01 1im3D b.1.18.5 62568 1senA 164 1.39e+01 c.47.1.1 105465 1a8y 367 1.45e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1aiw 62 1.46e+01 1aiw b.72.2.1 27808 1ikpA 613 1.49e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1xttA 216 1.51e+01 1fmhA 33 1.54e+01 1fmhB k.6.1.1 46409 1a8q 274 1.55e+01 1brt c.69.1.12 34702 1hcnA 92 1.56e+01 1hcnA g.17.1.4 44809 1mtyB 384 1.58e+01 1mtyB a.25.1.2 16740 1hq0A 295 1.59e+01 1hzgA d.194.1.1 61122 1aisA 182 1.63e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1hbnC 248 1.66e+01 1mroC d.58.31.1 60902 1whi 122 1.69e+01 1whi b.39.1.1 24810 1ts9A 102 1.71e+01 1df7A 159 1.73e+01 3dfr c.71.1.1 34885 1dtdB 61 1.78e+01 1dtvA g.30.1.1 44962 1oruA 195 1.79e+01 b.58.1.2 93464 1v33A 366 1.79e+01 d.264.1.1 100278 1pvmA 184 1.82e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1h54A 754 1.92e+01 a.102.1.4,b.30.5.3 60634,60635 1frb 315 1.97e+01 1frb c.1.7.1 28665 1rjoA 646 1.97e+01 2mcm 112 2.18e+01 2mcm b.1.7.1 22207 1hn4A 131 2.20e+01 a.133.1.2 65893 1fnlA 175 2.26e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1mfgA 95 2.30e+01 b.36.1.1 79043 1jigA 146 2.32e+01 a.25.1.1 71685 1tkeA 224 2.32e+01 1kqrA 179 2.44e+01 b.29.1.14 72886 1hdlA 55 2.45e+01 g.68.1.2 65808 1nh8A 304 2.49e+01 c.94.1.1,d.58.5.3 80507,80508 1ijvA 36 2.53e+01 g.9.1.1 66169 1earA 147 2.55e+01 b.107.1.1,d.58.38.1 64875,64876 1ee6A 197 2.62e+01 1ee6A b.80.1.1 28024 1i1qA 520 2.73e+01 1qdlA d.161.1.1 61543 1gk9B 557 2.74e+01 1p0zA 131 2.77e+01 d.110.6.1 93882 1g4iA 123 2.81e+01 1poa a.133.1.2 60241 1dgwA 178 2.81e+01 1dgwA b.82.1.2 28090 1w96A 554 2.81e+01 1enwA 114 2.83e+01 1enwA a.5.4.1 16291 1g31A 111 3.13e+01 1g31A b.35.1.1 24656 1jb0D 138 3.17e+01 1jb0D d.187.1.1 62823 1tvxA 75 3.21e+01 1tvxA d.9.1.1 37441 1p5dX 463 3.21e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1rvkA 382 3.24e+01 c.1.11.2,d.54.1.1 97928,97929 1ogoX 574 3.34e+01 b.133.1.1,b.80.1.10 92925,92926 1vcaA 202 3.36e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1k2xB 143 3.36e+01 1bx7 55 3.43e+01 1bx7 g.3.15.1 44355 1xakA 83 3.44e+01 1b3aA 67 3.49e+01 1b3aA d.9.1.1 37410 1ad2 228 3.64e+01 1ad2 e.24.1.1 43353 1whzA 70 3.66e+01 1jfuA 186 3.67e+01 c.47.1.10 62940 1j48A 110 3.71e+01 b.1.7.1 84112 1hx6A 394 3.82e+01 1cjdA b.121.2.1,b.121.2.1 58995,58996 1nq7A 244 3.87e+01 a.123.1.1 92047 2fneA 117 3.88e+01 1mba 147 3.94e+01 2fal a.1.1.2 15149 1fc3A 120 3.98e+01 1fc3A a.4.6.3 16237 1htrB 329 4.04e+01 1smrA 1cr5A 189 4.08e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1yb3A 175 4.13e+01 1gy6A 127 4.14e+01 d.17.4.2 70736 1fqtA 112 4.19e+01 1fqtA b.33.1.1 24441 1v6pA 62 4.21e+01 2ciaA 102 4.27e+01 1gycA 499 4.30e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1bcpD 110 4.33e+01 1bcpD b.40.2.1 25132 2ci9A 102 4.36e+01 1bia 321 4.47e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1d0dA 60 4.51e+01 1kigI g.8.1.2 44566 1tp6A 128 4.56e+01 d.17.4.12 107184 1qnrA 344 4.57e+01 1qnoA c.1.8.3 28834 1gpmA 525 4.65e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1qsaA 618 4.66e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1e29A 135 4.77e+01 1e29A a.3.1.1 59161 1udzA 182 4.77e+01 b.51.1.1 99239 1ei5A 520 4.78e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1dofA 403 4.78e+01 1c3cA a.127.1.1 19429 1f2tB 148 4.80e+01 1f2tB 1gpc 218 4.80e+01 1gpc b.40.4.7 25393 1eokA 290 4.80e+01 1eokA c.1.8.5 28991 1fecA 490 4.84e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1g4wR 383 4.85e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1sbxA 106 4.93e+01 a.6.1.4 105414 1iz6A 138 5.03e+01 b.34.5.2,b.40.4.5 76976,76977 1wdvA 152 5.12e+01 1bf6A 291 5.12e+01 1pscA c.1.9.3 29065 1qv1A 195 5.12e+01 a.39.1.5 96347 1r6dA 337 5.14e+01 c.2.1.2 97148 1s5aA 150 5.15e+01 d.17.4.10 98525 1vbiA 344 5.16e+01 1bywA 110 5.29e+01 1bywA d.110.3.6 40912 1vimA 200 5.31e+01 c.80.1.3 100758 1e7lA 157 5.33e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1sauA 115 5.35e+01 1mj5A 302 5.35e+01 c.69.1.8 91285 1d4xG 126 5.40e+01 1d0nA d.109.1.1 59109 1h7cA 108 5.41e+01 a.7.5.1 70914 1gq8A 319 5.57e+01 b.80.1.5 70350 1kqfC 217 5.67e+01 f.21.1.1 72874 1e0nA 27 5.68e+01 b.72.1.1 27807 1ne9A 335 5.72e+01 d.108.1.4,d.108.1.4 91839,91840 1l8bA 190 5.83e+01 d.86.1.1 73683 1t92A 116 6.04e+01 1go3F 107 6.07e+01 a.60.8.2 65407 1gen 218 6.07e+01 1gen b.66.1.1 27536 1luqA 127 6.12e+01 b.61.1.1 91128 1fjgE 162 6.15e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1kt6A 183 6.17e+01 b.60.1.1 84466 1a8s 273 6.21e+01 1brt c.69.1.12 34710 1u4gA 301 6.27e+01 d.92.1.2 107670 1jltA 122 6.35e+01 a.133.1.2 66867 1ajj 37 6.40e+01 1ajj g.12.1.1 44609 1bn7A 294 6.40e+01 1bn6A c.69.1.8 34677 1n6aA 259 6.40e+01 b.76.2.1,b.85.7.1 80121,80122 1fepA 724 6.51e+01 1fepA f.4.3.3 43808 1gkpA 458 6.53e+01 b.92.1.3,c.1.9.6 70231,70232 1vr9A 213 6.54e+01 1qhoA 686 6.56e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1euhA 475 6.58e+01 1euhA c.82.1.1 35369 1sluA 142 6.63e+01 1sluA b.16.1.1 23685 1d4tA 104 6.76e+01 1d4tA d.93.1.1 40537 1hulA 108 6.77e+01 1hulA a.26.1.2 16865 1gtzA 156 6.87e+01 c.23.13.1 70539 1g2cA 52 6.88e+01 1g2cA h.3.2.1 45767 1khcA 147 6.96e+01 b.34.9.2 68608 1vpjA 192 7.00e+01 1bg4 302 7.18e+01 1taxA c.1.8.3 28806 1elwA 118 7.22e+01 1a17 a.118.8.1 19207 1ynbA 173 7.25e+01 1h16A 759 7.26e+01 c.7.1.1 76462 1tl9A 339 7.29e+01 1ojrA 274 7.34e+01 c.74.1.1 93147 1jyoE 105 7.35e+01 d.184.1.2 67487 3htsB 102 7.37e+01 2hts a.4.5.22 16175 1r6jA 82 7.39e+01 b.36.1.1 97151 1kolA 398 7.53e+01 b.35.1.2,c.2.1.1 77474,77475 1d2sA 170 7.60e+01 1d2sA b.29.1.4 24221 1b5fB 87 7.60e+01 1b5fB 1vmeA 410 7.72e+01 c.23.5.1,d.157.1.3 108893,108894 1bcpB 199 7.75e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1f2vA 219 7.78e+01 1f2vA c.23.17.1 59627 1go3E 187 7.81e+01 b.40.4.5,d.230.1.1 83054,83055 1bh9B 89 7.85e+01 1bh9B a.22.1.3 16485 1he7A 126 7.86e+01 1wwcA b.1.1.4 60970 1mc2A 122 7.89e+01 a.133.1.2 74622 1w4xA 542 7.97e+01 c.3.1.5,c.3.1.5 109171,109172 1dmuA 299 8.03e+01 1dmuA c.52.1.4 33294 1e85A 127 8.04e+01 1bbhA a.24.3.2 16549 1l7lA 121 8.12e+01 b.18.1.16 77790 1exqA 154 8.13e+01 1b9dA c.55.3.2 33646 1euwA 152 8.21e+01 1dupA b.85.4.1 28349 1rm6A 769 8.23e+01 1n57A 291 8.24e+01 c.23.16.2 85328 1kv7A 488 8.26e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1v8hA 107 8.30e+01 1fjgK 129 8.34e+01 1fjfK c.55.4.1 33733 1koe 172 8.39e+01 1koe d.169.1.5 42448 1iuaA 83 8.44e+01 g.35.1.1 71438 1fr3A 67 8.48e+01 1fr3A b.40.6.1 25436 1xmzA 241 8.51e+01 1gx1A 160 8.53e+01 d.79.5.1 70675 1eejA 216 8.61e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1pcfA 66 8.66e+01 1pcfA d.18.1.1 38142 1hnjA 317 8.75e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1u9cA 224 8.80e+01 1h2wA 710 8.88e+01 b.69.7.1,c.69.1.4 76596,76597 1vrmA 325 8.89e+01 1ecsA 126 8.93e+01 1ecsA d.32.1.2 59407 1ey4A 149 8.94e+01 1snc b.40.1.1 24815