# List of top-scoring protein chains for t2k-w0.5-1-n_sep-0.1-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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 1jj2Y 73 0.02804 g.41.8.1 63110 1rlyA 60 0.04223 g.41.3.1 104988 1ffkW 73 0.05022 g.41.8.1 45315 3cngA 189 0.09609 1jj2Z 56 0.1573 g.41.8.2 63111 1dl6A 58 0.2728 g.41.3.1 45207 2apoB 60 0.3263 g.41.16.1 127135 2e72A 49 0.5735 3c0dA 119 0.5864 3c7bA 417 0.8071 2ct7A 86 1.002 g.44.1.4 130791 1uaqA 158 1.007 c.97.1.2 88386 2ausB 60 1.069 1vk6A 269 1.073 d.113.1.4,d.113.1.4,g.41.14.1 100852,111609,111610 1z3aA 168 1.092 c.97.1.2 124396 2rfkB 53 1.131 1ltlA 279 1.248 b.40.4.11 84701 2a8nA 144 1.283 c.97.1.2 126408 2qjtA 352 1.330 2gnrA 145 1.336 1s72Z 73 1.388 g.41.8.1 105345 1tiyA 164 1.480 c.97.1.2 107012 2j015 60 1.618 1n0zA 45 1.719 g.41.11.1 85247 2riqA 160 1.981 1wkqA 164 2.014 c.97.1.2 109393 1s5aA 150 2.260 d.17.4.10 98525 2gbwA 454 2.364 1shyB 551 2.501 b.69.12.1,g.16.2.1 105565,105566 3bk3C 67 2.558 2bngA 149 2.719 2nx8A 179 2.720 2b3jA 159 2.724 c.97.1.2 127787 2fmlA 273 2.972 a.4.5.68,d.113.1.6 133778,133779 2hf1A 68 3.094 1v54F 98 3.113 g.41.5.3 100327 1ptqA 50 3.222 g.49.1.1 45349 1wwrA 171 4.065 c.97.1.2 121366 2occF 98 4.202 g.41.5.3 45256 1beiA 35 4.365 g.19.1.1 44877 1eu1A 780 4.443 b.52.2.2,c.81.1.1 26903,35311 1lv3A 68 4.676 g.39.1.9 78231 1sjgA 112 4.696 b.33.1.1 105647 2bh0A 208 4.826 1iroA 54 5.160 g.41.5.1 45223 1vm9A 111 5.172 b.33.1.1 108886 2pvxA 54 5.192 2bmoA 447 5.259 b.33.1.2,d.129.3.3 128804,128805 1yo8A 634 5.323 1g38A 393 5.903 c.66.1.27,d.287.1.1 111567,111568 1p6oA 161 6.154 c.97.1.2 94185 1vqoZ 83 6.174 g.41.8.1 120387 1yk4A 52 6.231 2conA 79 6.398 g.41.15.1 130680 2ih2A 421 6.535 6rxnA 45 6.624 g.41.5.1 45222 2pveA 54 6.642 2dsxA 52 6.766 g.41.5.1 131699 2hvwA 184 6.774 2ctdA 96 6.806 g.37.1.1,g.37.1.1 130792,130793 1m2kA 249 7.028 c.31.1.5 84754 2qjoA 341 7.096 1rb9A 52 7.203 g.41.5.1 45214 1h98A 78 7.211 d.58.1.2 65743 1wdxA 69 7.234 1xm0A 147 7.249 b.88.1.3 122140 1kqfA 1015 7.302 b.52.2.2,c.81.1.1 72871,72872 7fd1A 106 7.374 d.58.1.2 38953 2b5lC 222 7.613 2e4qA 109 7.625 1b13A 54 7.648 g.41.5.1 45227 1b2jA 54 7.752 g.41.5.1 45231 1b2oA 54 7.802 g.41.5.1 45233 1uliA 460 7.835 b.33.1.2,d.129.3.3 107921,107922 1brfA 53 7.862 g.41.5.1 45236 1g8kA 825 7.953 b.52.2.2,c.81.1.1 26920,35328 2ckfA 454 8.176 1bq8A 54 8.202 g.41.5.1 45237 1eg9A 449 8.203 b.33.1.2,d.129.3.3 24443,41322 1bq9A 54 8.223 g.41.5.1 45238 1ptq 50 8.610 1ro5A 201 8.734 d.108.1.3 105023 1kzfA 230 8.800 d.108.1.3 73354 1dsvA 31 8.805 g.40.1.1 45174 1g8jA 825 8.847 b.52.2.2,c.81.1.1 26924,35332 1nwwA 149 8.954 d.17.4.8 86306 2nutA 769 8.976 3c7bB 366 9.150 1vq2A 193 9.188 c.97.1.2 114004 1p91A 269 9.372 c.66.1.33 94378 1dgsA 667 9.648 a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1iciA 256 9.654 c.31.1.5 62266 1dx8A 70 9.744 g.41.5.1 45243 2b1xA 470 9.795 b.33.1.2,d.129.3.3 127675,127676 1rb9 53 9.894 1h0hA 977 9.941 b.52.2.2,c.81.1.1 76435,76436 2jmoA 80 10.10 1tuhA 156 10.12 d.17.4.11 107345 2csbA 519 10.17 a.60.2.4,a.60.2.4,a.60.2.4,a.60.2.4,a.267.1.1 130751,130752,130753,130754,130755 1sl4A 155 10.42 d.169.1.1 105710 1ee8A 266 10.44 a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1o13A 136 10.45 c.55.5.1 80762 1j8eA 44 10.65 g.12.1.1 66437 1ajj 37 10.70 2fdn 55 11.33 2cttA 104 11.69 2hr7A 486 11.89 1cl4A 60 12.08 g.40.1.1 45171 1q16A 1247 12.55 b.52.2.2,c.81.1.1 95546,95547 1jocA 125 12.66 g.50.1.1,h.1.21.1 66990,66991 1b71A 191 12.67 a.25.1.1,g.41.5.1 16647,45246 1y5iA 1246 12.76 b.52.2.2,c.81.1.1 122639,122640 1ltsA 185 12.87 d.166.1.1 42229 1ma3A 253 13.00 c.31.1.5 78883 2napA 723 13.10 b.52.2.2,c.81.1.1 26926,35334 2atrA 138 13.61 d.108.1.1 127305 4gatA 66 13.64 g.39.1.1 45100 1ndoA 449 13.87 b.33.1.2,d.129.3.3 24444,41323 2g84A 197 13.92 c.97.1.2 134766 1z02A 446 13.98 2v3vA 723 14.22 1yc5A 246 14.27 c.31.1.5 122910 1k82A 268 14.28 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1ajjA 37 14.43 g.12.1.1 44609 2v2kA 105 14.45 2jo6A 113 14.54 2i13A 190 14.68 k.12.1.1 136964 1k3xA 262 14.99 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 2pmzP 48 15.41 1x6mA 196 15.77 b.88.1.4 114920 1wd2A 60 15.95 g.44.1.1 109232 2de6A 392 16.12 b.33.1.2,d.129.3.3 131415,131416 1fqtA 112 16.83 b.33.1.1 24441 1vhzA 198 17.09 d.113.1.1 100718 2fiyA 309 17.21 e.59.1.1 133540 2ibtA 421 17.46 c.66.1.27,d.287.1.1 137205,137206 1f5yA 85 17.51 g.12.1.1,g.12.1.1 44610,44611 1twfI 122 17.53 g.41.3.1,g.41.3.1 112733,112734 1zkiA 133 17.53 d.38.1.5 125199 2fcwB 80 17.58 g.12.1.1,g.12.1.1 133289,133290 1l3yA 41 17.68 g.3.11.6 73558 1ryqA 69 17.84 g.41.9.3 105126 2i5oA 39 17.93 2e7zA 727 18.79 2gb4A 252 19.00 1irxA 523 19.00 a.97.1.2,c.26.1.1 71378,71379 1l1zA 274 19.03 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1aqjA 421 19.46 c.66.1.27,d.287.1.1 111563,111564 2jrpA 81 19.77 2d8qA 70 19.92 g.85.1.1 131335 2fs2A 151 20.18 d.38.1.5 134003 1gaxA 862 20.43 b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 2qkdA 404 20.48 2vpzA 765 21.30 1u5mA 73 21.60 g.27.1.2 113043 1b0tA 106 21.71 d.58.1.2 38965 1gntA 553 22.11 e.26.1.1 70290 2vil 126 22.46 1mfwA 107 22.83 d.15.11.1 84940 1q1aA 289 23.97 c.31.1.5 95561 2bs6A 90 24.07 1q98A 165 24.17 c.47.1.10 96253 2hldG 278 24.39 2i7fA 108 24.93 1lkoA 191 25.17 a.25.1.1,g.41.5.1 78063,78064 1hdlA 55 25.41 g.68.1.2 65808 1th5A 74 25.98 d.52.8.1 119263 1twfL 70 26.06 g.41.9.2 112737 1l1dA 152 27.56 b.88.1.3 73452 2cy9A 140 27.63 d.38.1.5 131019 2f0xA 148 27.83 d.38.1.5 132673 1sjwA 144 27.87 d.17.4.9 98899 1yfuA 174 28.26 b.82.1.20 123094 2admA 421 28.38 c.66.1.27,d.287.1.1 111611,111612 1ryt 190 28.62 1lml 478 29.13 1s5pA 235 29.70 c.31.1.5 98569 2oap1 511 29.74 1xpaA 122 30.68 a.6.1.2,g.39.1.5 16308,45151 1vqo3 92 31.71 1n71A 180 33.36 d.108.1.1 85370 2baiA 32 34.18 g.87.1.1 128237 1ykfA 352 35.05 b.35.1.2,c.2.1.1 24757,29773 1b8sA 504 35.15 c.3.1.2,d.16.1.1 30335,37866 2i9sA 97 35.65 2f8lA 344 35.86 c.66.1.45 133132 2geyA 158 36.49 2ivfB 352 36.65 2ba1A 179 36.66 1wjnA 97 36.67 d.15.1.1 114703 1npoC 95 36.90 b.9.1.1 23271 2h4uA 145 37.22 d.38.1.5 136082 2bx9A 53 38.28 1s1dA 331 38.70 b.67.3.1 98344 1k8kC 372 38.83 b.69.4.1 68308 2g45A 129 39.21 1cr8A 42 39.23 g.12.1.1 44613 1gh9A 71 39.61 g.41.6.1 45266 1jy2P 48 39.65 h.1.8.1 67442 1mmcA 30 39.84 g.3.1.2 44061 1bv8A 138 40.67 b.2.4.1 22430 1l5cA 92 40.97 b.9.1.1 73577 1jjdA 55 41.02 g.46.1.1 63116 2jrrA 67 41.47 2de6D 115 41.68 2iv2X 715 41.90 b.52.2.2,c.81.1.1 137714,137715 1pedA 351 41.97 b.35.1.2,c.2.1.1 24753,29769 1npoA 95 41.99 b.9.1.1 23270 1wuiL 534 42.08 e.18.1.1 121289 2b4yA 271 42.23 c.31.1.5 127868 1t3vA 124 42.27 c.55.5.1 112232 3c5kA 109 42.30 1qxfA 66 42.45 g.41.8.4 96527 1knwA 425 42.75 b.49.2.3,c.1.6.1 90969,90970 2pspA 106 43.01 g.16.1.1,g.16.1.1 44730,44731 1jhdA 396 43.41 b.122.1.3,c.26.1.5 66712,66713 1zbdB 134 43.60 g.50.1.1 45359 1kevA 351 43.61 b.35.1.2,c.2.1.1 24749,29765 3bm4A 210 43.76 1pl8A 356 44.19 b.35.1.2,c.2.1.1 94878,94879 1e3dB 542 45.31 e.18.1.1 59189 2jvmA 80 45.40 1bs9 207 45.74 1utyA 187 46.32 b.147.1.1 108036 2h2tB 175 46.93 2fkiA 126 48.19 d.198.3.1 133657 2hjhA 354 48.24 1kte 105 48.77 1wo3A 25 49.21 2eppA 66 50.11 1boeA 47 50.43 g.3.9.1 44187 1e79G 272 50.43 c.49.2.1 33158 1jvbA 347 50.47 b.35.1.2,c.2.1.1 77181,77182 1p3y1 194 50.55 1vqo1 57 50.95 2ozhA 142 51.12 1nykA 165 51.58 b.33.1.1 86408 1mzbA 136 51.77 a.4.5.42 91497 1l1nA 183 52.20 b.47.1.4 73476 1obpA 159 52.76 b.60.1.1 27092 1e3jA 352 52.92 b.35.1.2,c.2.1.1 24765,29781 2j01V 101 52.96 1vfyA 73 53.34 g.50.1.1 45357 1jqbA 351 53.77 b.35.1.2,c.2.1.1 77151,77152 1g73C 121 53.78 g.52.1.1 45375 2rk5A 87 53.92 1wo7A 25 54.03 1g0sA 209 54.79 d.113.1.1 60187 1h8eG 272 55.04 c.49.2.1 60756 2iafA 151 55.15 d.81.2.1 137157 1bpoA 494 55.32 a.118.1.4,b.69.6.1 19143,27670 1wo6A 25 55.58 1a1tA 55 55.73 g.40.1.1 45165 1x3xA 82 55.90 2nutB 753 55.98 2p57A 144 56.35 1lt3A 240 56.87 d.166.1.1 42230 1xbtA 193 57.11 c.37.1.24,g.39.1.14 115080,115081 1dvpA 220 57.40 a.118.9.2,g.50.1.1 19216,45358 2ck3G 272 57.80 c.49.2.1 130562 1r4yA 136 57.88 d.1.1.3 97056 1l8dA 112 58.18 h.4.12.1 73687 2jdiG 273 59.43 c.49.2.1 138272 2cdcA 366 59.72 2orwA 184 59.74 1o7nA 449 60.22 b.33.1.2,d.129.3.3 81162,81163 2nswA 60 60.34 2agkA 260 60.37 1eo1A 124 60.67 c.55.5.1 33739 1frvB 536 61.27 e.18.1.1 43296 1x3zA 335 61.49 d.3.1.4 121673 1yukB 120 61.59 1erdA 40 62.49 a.10.1.1 16362 1p90A 145 62.57 c.55.5.2 94377 1zntA 31 62.58 1icwA 72 62.84 d.9.1.1 37357 2i00A 406 63.48 3ch0A 272 63.56 2olmA 140 63.61 3cxkA 164 63.65 3bwwA 307 63.71 1kxoA 184 63.92 b.60.1.1 84475 2q3wA 111 64.69 b.33.1.1 139813 2aqaA 63 65.20 g.41.16.1 127168 2owaA 138 65.36 1uv0A 149 65.48 d.169.1.1 100028 1gmyA 261 65.53 d.3.1.1 76236 1u5kA 244 65.67 b.40.4.13,g.45.1.2 113038,113039 1zoyB 252 65.80 1p0hA 318 65.85 d.108.1.1 93866 2iqjA 134 67.06 1kbeA 49 67.21 g.49.1.1 68380 2gliA 160 67.49 g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1 45041,45042,45043,45044,45045 1h7xA 1025 67.85 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1wqkA 42 68.21 2frvB 536 69.29 e.18.1.1 43291 2ovrB 445 69.66 1a48 306 69.96 1kolA 398 70.00 b.35.1.2,c.2.1.1 77474,77475 1p0fA 373 71.09 b.35.1.2,c.2.1.1 87642,87643 1o9gA 250 71.34 c.66.1.29 86692 1lugA 259 71.99 b.74.1.1 91127 2bn2A 95 72.13 b.9.1.1 23266 1de3A 150 72.80 d.1.1.3 36240 1pcfA 66 72.81 d.18.1.1 38142 1ivgA 388 72.86 b.68.1.1 27578 1w4rA 195 73.58 2amdA 311 73.68 2gelA 231 73.81 1b0vA 106 75.39 d.58.1.2 38982 2v0cA 878 75.59 1a7hA 86 75.68 b.11.1.1 23600 1ayoA 130 76.82 b.2.4.1 22431 2gatA 66 77.51 g.39.1.1 45102 1zy7A 403 77.52 2hv2A 400 78.00 1f3hA 142 78.24 g.52.1.1 45381 2yrkA 55 80.14 1sdwA 314 80.32 b.121.1.2,b.121.1.2 98810,98811 1fljA 260 81.23 b.74.1.1 27954 1zncA 266 81.62 b.74.1.1 27955 1bw3A 125 81.96 b.52.1.2 26899 1y7wA 291 82.06 1jk4A 89 82.19 b.9.1.1 77130 1vhmA 195 82.26 d.110.2.1 100691 2hbpA 68 82.93 1h2bA 359 83.48 b.35.1.2,c.2.1.1 90543,90544 2d8aA 348 83.91 1qdpA 42 83.93 g.3.6.2 44113 1e1dA 553 84.15 e.26.1.1 43363 1jd0A 263 84.28 b.74.1.1 62888 1pguA 615 85.14 b.69.4.1,b.69.4.1 88069,88070 1d4xG 126 85.48 d.109.1.1 59109 2ooxA 137 86.13 1w4sA 174 86.29 1hyiA 65 86.33 g.50.1.1 61406 1g7eA 122 86.46 c.47.1.7 33055 2ohxA 374 88.85 b.35.1.2,c.2.1.1 24669,29685 2poiA 94 89.20 2bs2B 241 89.32 a.1.2.1,d.15.4.2 129033,129034 1gatA 60 89.63 g.39.1.1 45106