NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
タンパク質結合による構造変化のデータ | タンパク質結合による構造変化の補助データ | 進化的構造変化データ | 構造的ゆらぎデータ
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Data of conformation changes by some binding | Supplement data for conformation changes by some binding | Data of evolutionary structure change | Data of structural flexibility
1YDVA-2V2HC
confEVID 1YDVA-2V2HC
pdbIDA 1YDV
pdbIDB 2V2H
pdbChainA A
pdbChainB C
identity 0.381500005722046
indelSize 3
alignment <alignment>
<seq1>--RKYFVAANWKCNGTLESIKSLTNSFNNLDFDPSKLDVVVFPVSVHYDHTRKLLQ-SKFSTGIQNVSKFGNGSYTGEVSAEIAKDLNIEYVIIGHFERRKYFHETDEDVREKLQASLKNNLKAVVCFGESLEQREQNKTIEVITKQVKAFVDLID--NFDNVILVYEPLWAIGTGKTATPEQAQLVHKEIRKIVKDTCGEKQANQIRILYGGSVNTENCSSLIQQEDIDGFLVGNASLKESFVDIIKSAM</seq1>
<seq2>SKPQPIAAANWKS-GSPDSLSELIDLFNSTSIN-HDVQCVVASTFVHLAMTKERLSHPKFVIAAQNAGN--------ADALASLKDFGVNWIVLGHSERRWYYGETNEIVADKVAAAVASGFMVIACIGETLQERESGRTAVVVLTQIAAIAKKLKKADWAKVVIAYEPVWAIGTGKVLTPQQAQEAHALIRSWVSSKIGADVAGELRILYGGSVNGKNARTLYQQRDVNGFLVGGASLKPEFVDIIKATQ</seq2>
<ss_1>-- EEEE HHHHHHHHHHGGG EEEEE GGGHHHHHHH - EEEE HHHHHH EEEE HHHH HHHHHHHHHHHH EEEEEE HHHHH HHHHHHHHHH GGG -- EEE HHHHHHHHHHHHHHHHH HHHHHH EE HHHHH EEEE GGGG GGGHHHHH </ss_1>
<ss_2> EEEE - HHHHHHHHHH - EEEEE HHHHHHHHHH EEEE --------HHHHHHHHH EEEE HHHH HHHHHHHHHHHHH EEEEEE HHHHH HHHHHHHHHHHHGGG GGGGGG EEEE HHHHHHHHHHHHHHHHH HHHHHH EEE HHHHH EEEE GGGG HHHHHH </ss_2>
</alignment>
indel <indel>
<confEVID></confEVID>
<index>0</index>
<entryChain>
<pdbID>1YDV</pdbID>
<pdbChain>A</pdbChain>
<entryIDChain>1YDVA</entryIDChain>
<sequence>RKLLQ-SKFST</sequence>
<secondary-structure>HHH - EE</secondary-structure>
<atom-coordinate>
<line>ATOM 399 CA ARG A 52 31.147 14.762 18.809 1.00 9.76 C </line>
<line>ATOM 410 CA LYS A 53 33.347 17.753 18.041 1.00 15.49 C </line>
<line>ATOM 419 CA LEU A 54 33.857 16.754 14.381 1.00 11.67 C </line>
<line>ATOM 427 CA LEU A 55 30.320 15.596 13.578 1.00 10.26 C </line>
<line>ATOM 435 CA GLN A 56 27.820 18.364 12.808 1.00 9.68 C </line>
<line>ATOM 444 CA SER A 57 24.763 18.649 15.090 1.00 9.87 C </line>
<line>ATOM 450 CA LYS A 58 22.476 16.827 12.602 1.00 5.93 C </line>
<line>ATOM 459 CA PHE A 59 23.954 13.573 13.900 1.00 9.06 C </line>
<line>ATOM 470 CA SER A 60 23.283 12.115 17.357 1.00 4.85 C </line>
<line>ATOM 476 CA THR A 61 25.989 10.231 19.280 1.00 5.57 C </line>
</atom-coordinate>
<distance-map>
<line> THR SER PHE LYS SER GLN LEU LEU LYS ARG </line>
<line> CA CA CA CA CA CA CA CA CA CA </line>
<line>ARG CA 6.88 8.42 8.79 10.86 8.35 7.75 5.36 5.56 3.79 </line>
<line>LYS CA 10.60 11.56 11.08 12.19 9.12 7.64 5.81 3.83 </line>
<line>LEU CA 11.33 11.92 10.41 11.52 9.32 6.44 3.81 </line>
<line>LEU CA 8.95 8.71 6.69 8.00 6.52 3.81 </line>
<line>GLN CA 10.55 8.96 6.25 5.56 3.83 </line>
<line>SER CA 9.48 7.07 5.28 3.84 </line>
<line>LYS CA 10.02 6.74 3.80 </line>
<line>PHE CA 6.65 3.81 </line>
<line>SER CA 3.82 </line>
<line>THR CA </line>
</distance-map>
<n14>
<line>ARG CA 348</line>
<line>LYS CA 272</line>
<line>LEU CA 281</line>
<line>LEU CA 340</line>
<line>GLN CA 278</line>
<line>SER CA 265</line>
<line>LYS CA 295</line>
<line>PHE CA 411</line>
<line>SER CA 426</line>
<line>THR CA 464</line>
</n14>
</entryChain>
<entryChain>
<pdbID>2V2H</pdbID>
<pdbChain>C</pdbChain>
<entryIDChain>2V2HC</entryIDChain>
<sequence>KERLSHPKFVI</sequence>
<secondary-structure>HHH EE</secondary-structure>
<atom-coordinate>
<line>ATOM 4047 CA LYS C 52 10.731 37.738 -17.120 1.00 12.84 C </line>
<line>ATOM 4056 CA GLU C 53 13.670 37.448 -14.707 1.00 14.19 C </line>
<line>ATOM 4065 CA ARG C 54 12.054 37.290 -11.264 1.00 18.94 C </line>
<line>ATOM 4076 CA LEU C 55 8.914 35.264 -11.741 1.00 20.71 C </line>
<line>ATOM 4084 CA SER C 56 10.252 31.769 -11.261 1.00 27.05 C </line>
<line>ATOM 4090 CA HIS C 57 7.177 29.715 -10.479 1.00 14.55 C </line>
<line>ATOM 4100 CA PRO C 58 6.839 26.785 -12.932 1.00 14.48 C </line>
<line>ATOM 4107 CA LYS C 59 3.092 27.466 -13.385 1.00 9.06 C </line>
<line>ATOM 4116 CA PHE C 60 3.581 31.069 -14.503 1.00 8.34 C </line>
<line>ATOM 4127 CA VAL C 61 4.209 32.864 -17.764 1.00 8.78 C </line>
<line>ATOM 4134 CA ILE C 62 4.440 36.582 -18.587 1.00 10.56 C </line>
</atom-coordinate>
<distance-map>
<line> ILE VAL PHE LYS PRO HIS SER LEU ARG GLU LYS </line>
<line> CA CA CA CA CA CA CA CA CA CA CA </line>
<line>LYS CA 6.56 8.17 10.12 13.33 12.36 11.00 8.38 6.19 6.02 3.81 </line>
<line>GLU CA 10.05 10.95 11.94 14.60 12.79 10.95 7.47 6.02 3.81 </line>
<line>ARG CA 10.59 11.11 11.00 13.47 11.85 9.04 5.81 3.77 </line>
<line>LEU CA 8.28 8.01 7.33 9.87 8.81 5.95 3.77 </line>
<line>SER CA 10.52 8.94 7.45 8.62 6.27 3.78 </line>
<line>HIS CA 10.97 8.47 5.56 5.49 3.84 </line>
<line>PRO CA 11.56 8.20 5.61 3.84 </line>
<line>LYS CA 10.58 7.04 3.80 </line>
<line>PHE CA 6.91 3.77 </line>
<line>VAL CA 3.81 </line>
<line>ILE CA </line>
</distance-map>
<n14>
<line>LYS CA 320</line>
<line>GLU CA 234</line>
<line>ARG CA 270</line>
<line>LEU CA 330</line>
<line>SER CA 249</line>
<line>HIS CA 291</line>
<line>PRO CA 249</line>
<line>LYS CA 321</line>
<line>PHE CA 411</line>
<line>VAL CA 416</line>
<line>ILE CA 454</line>
</n14>
</entryChain>
<parallel>
<x>19.819000244140625</x>
<y>-16.569000244140625</y>
<z>28.264999389648438</z>
</parallel>
<rotation>
<x>0.5799999833106995</x>
<y>0.7360000014305115</y>
<z>0.3490000069141388</z>
<x>0.7680000066757202</x>
<y>-0.6370000243186951</y>
<z>0.06700000166893005</z>
<x>0.2720000147819519</x>
<y>0.23000000417232513</y>
<z>-0.9350000023841858</z>
</rotation>
<rmsd>1.431246042251587</rmsd>
<dmax>2.7412610054016113</dmax>
</indel>
<indel>
<confEVID></confEVID>
<index>1</index>
<entryChain>
<pdbID>1YDV</pdbID>
<pdbChain>A</pdbChain>
<entryIDChain>1YDVA</entryIDChain>
<sequence>VDLID--NFDNV</sequence>
<secondary-structure>GGG -- </secondary-structure>
<atom-coordinate>
<line>ATOM 1200 CA VAL A 151 9.782 -5.352 28.287 1.00 13.86 C </line>
<line>ATOM 1207 CA ASP A 152 7.919 -4.376 31.480 1.00 10.33 C </line>
<line>ATOM 1215 CA LEU A 153 10.490 -1.632 32.204 1.00 11.65 C </line>
<line>ATOM 1223 CA ILE A 154 9.682 0.378 29.074 1.00 10.94 C </line>
<line>ATOM 1231 CA ASP A 155 7.876 3.550 30.119 1.00 14.78 C </line>
<line>ATOM 1239 CA ASN A 156 8.147 5.785 27.029 1.00 11.18 C </line>
<line>ATOM 1247 CA PHE A 157 8.038 3.792 23.783 1.00 6.98 C </line>
<line>ATOM 1258 CA ASP A 158 9.910 6.484 21.842 1.00 14.65 C </line>
<line>ATOM 1266 CA ASN A 159 12.952 6.138 24.133 1.00 11.25 C </line>
<line>ATOM 1274 CA VAL A 160 13.690 2.426 23.692 1.00 7.27 C </line>
</atom-coordinate>
<distance-map>
<line> VAL ASN ASP PHE ASN ASP ILE LEU ASP VAL </line>
<line> CA CA CA CA CA CA CA CA CA CA </line>
<line>VAL CA 9.84 12.62 13.48 10.34 11.33 9.29 5.78 5.45 3.82 </line>
<line>ASP CA 11.84 13.78 14.66 11.22 11.10 8.04 5.61 3.83 </line>
<line>LEU CA 9.96 11.47 13.17 10.31 9.34 6.17 3.81 </line>
<line>ILE CA 7.02 8.26 9.47 6.51 5.98 3.80 </line>
<line>ASP CA 8.74 8.26 9.01 6.34 3.82 </line>
<line>ASN CA 7.29 5.62 5.52 3.81 </line>
<line>PHE CA 5.82 5.46 3.81 </line>
<line>ASP CA 5.85 3.82 </line>
<line>ASN CA 3.81 </line>
<line>VAL CA </line>
</distance-map>
<n14>
<line>VAL CA 398</line>
<line>ASP CA 280</line>
<line>LEU CA 303</line>
<line>ILE CA 358</line>
<line>ASP CA 275</line>
<line>ASN CA 272</line>
<line>PHE CA 351</line>
<line>ASP CA 333</line>
<line>ASN CA 378</line>
<line>VAL CA 480</line>
</n14>
</entryChain>
<entryChain>
<pdbID>2V2H</pdbID>
<pdbChain>C</pdbChain>
<entryIDChain>2V2HC</entryIDChain>
<sequence>AKKLKKADWAKV</sequence>
<secondary-structure>GGG GGGGGG </secondary-structure>
<atom-coordinate>
<line>ATOM 4751 CA ALA C 151 -12.738 33.234 -36.172 1.00 7.57 C </line>
<line>ATOM 4756 CA LYS C 152 -12.770 34.564 -39.743 1.00 9.51 C </line>
<line>ATOM 4765 CA LYS C 153 -9.019 35.145 -39.450 1.00 10.14 C </line>
<line>ATOM 4774 CA LEU C 154 -8.122 31.841 -37.810 1.00 9.78 C </line>
<line>ATOM 4782 CA LYS C 155 -7.543 28.424 -39.363 1.00 8.99 C </line>
<line>ATOM 4791 CA LYS C 156 -8.730 25.362 -37.450 1.00 13.92 C </line>
<line>ATOM 4800 CA ALA C 157 -5.264 24.538 -36.021 1.00 12.38 C </line>
<line>ATOM 4805 CA ASP C 158 -4.768 28.125 -34.797 1.00 10.19 C </line>
<line>ATOM 4813 CA TRP C 159 -7.400 27.747 -32.058 1.00 7.37 C </line>
<line>ATOM 4827 CA ALA C 160 -4.838 25.763 -29.975 1.00 9.16 C </line>
<line>ATOM 4832 CA LYS C 161 -3.044 29.120 -29.550 1.00 7.86 C </line>
<line>ATOM 4841 CA VAL C 162 -6.130 31.185 -28.637 1.00 6.68 C </line>
</atom-coordinate>
<distance-map>
<line> VAL LYS ALA TRP ASP ALA LYS LYS LEU LYS LYS ALA </line>
<line> CA CA CA CA CA CA CA CA CA CA CA CA </line>
<line>ALA CA 10.23 12.44 12.52 8.69 9.57 11.47 8.93 7.77 5.09 5.31 3.81 </line>
<line>LYS CA 13.37 15.10 15.36 11.59 11.40 13.07 10.31 8.07 5.72 3.81 </line>
<line>LYS CA 11.87 13.04 13.97 10.58 9.43 11.76 9.99 6.88 3.80 </line>
<line>LEU CA 9.41 10.07 10.45 7.10 5.84 8.04 6.52 3.80 </line>
<line>LYS CA 11.17 10.82 10.13 7.34 5.35 5.61 3.80 </line>
<line>LYS CA 10.88 10.43 8.44 6.04 5.51 3.84 </line>
<line>ALA CA 9.97 8.23 6.18 5.53 3.82 </line>
<line>ASP CA 7.01 5.61 5.37 3.82 </line>
<line>TRP CA 5.01 5.21 3.85 </line>
<line>ALA CA 5.73 3.83 </line>
<line>LYS CA 3.82 </line>
<line>VAL CA </line>
</distance-map>
<n14>
<line>ALA CA 383</line>
<line>LYS CA 263</line>
<line>LYS CA 277</line>
<line>LEU CA 307</line>
<line>LYS CA 233</line>
<line>LYS CA 224</line>
<line>ALA CA 209</line>
<line>ASP CA 293</line>
<line>TRP CA 375</line>
<line>ALA CA 324</line>
<line>LYS CA 366</line>
<line>VAL CA 470</line>
</n14>
</entryChain>
<parallel>
<x>17.3799991607666</x>
<y>-29.527000427246094</y>
<z>64.14800262451172</z>
</parallel>
<rotation>
<x>0.5019999742507935</x>
<y>0.8399999737739563</y>
<z>0.20600000023841858</z>
<x>0.7799999713897705</x>
<y>-0.5429999828338623</y>
<z>0.31200000643730164</z>
<x>0.37400001287460327</x>
<y>0.004000000189989805</y>
<z>-0.9269999861717224</z>
</rotation>
<rmsd>1.1158289909362793</rmsd>
<dmax>1.6910849809646606</dmax>
</indel>
<indel>
<confEVID></confEVID>
<index>2</index>
<entryChain>
<pdbID>2V2H</pdbID>
<pdbChain>C</pdbChain>
<entryIDChain>2V2HC</entryIDChain>
<sequence>STSIN-HDVQC</sequence>
<secondary-structure> - E</secondary-structure>
<atom-coordinate>
<line>ATOM 3879 CA SER C 30 6.556 30.970 -2.920 1.00 17.73 C </line>
<line>ATOM 3885 CA THR C 31 2.969 29.707 -3.318 1.00 12.33 C </line>
<line>ATOM 3892 CA SER C 32 2.241 25.996 -3.620 1.00 13.22 C </line>
<line>ATOM 3898 CA ILE C 33 -0.030 25.286 -6.561 1.00 10.25 C </line>
<line>ATOM 3906 CA ASN C 34 -0.859 21.564 -6.714 1.00 19.75 C </line>
<line>ATOM 3914 CA HIS C 35 -3.156 21.360 -9.714 1.00 10.47 C </line>
<line>ATOM 3924 CA ASP C 36 -2.768 21.904 -13.450 1.00 9.81 C </line>
<line>ATOM 3932 CA VAL C 37 -3.374 25.597 -14.123 1.00 7.23 C </line>
<line>ATOM 3939 CA GLN C 38 -1.603 28.102 -16.396 1.00 6.40 C </line>
<line>ATOM 3948 CA CYS C 39 -1.008 31.296 -14.451 1.00 5.91 C </line>
</atom-coordinate>
<distance-map>
<line> CYS GLN VAL ASP HIS ASN ILE SER THR SER </line>
<line> CA CA CA CA CA CA CA CA CA CA </line>
<line>SER CA 13.79 16.01 15.91 16.73 15.26 12.56 9.43 6.62 3.82 </line>
<line>THR CA 11.93 13.95 13.19 14.02 12.17 9.62 6.25 3.79 </line>
<line>SER CA 12.49 13.51 11.92 11.77 9.37 6.23 3.78 </line>
<line>ILE CA 9.97 10.35 8.27 8.15 5.93 3.82 </line>
<line>ASN CA 12.43 11.71 8.80 7.01 3.78 </line>
<line>HIS CA 11.22 9.62 6.12 3.80 </line>
<line>ASP CA 9.61 6.96 3.80 </line>
<line>VAL CA 6.18 3.82 </line>
<line>GLN CA 3.79 </line>
<line>CYS CA </line>
</distance-map>
<n14>
<line>SER CA 213</line>
<line>THR CA 263</line>
<line>SER CA 222</line>
<line>ILE CA 268</line>
<line>ASN CA 200</line>
<line>HIS CA 228</line>
<line>ASP CA 253</line>
<line>VAL CA 359</line>
<line>GLN CA 419</line>
<line>CYS CA 494</line>
</n14>
</entryChain>
<entryChain>
<pdbID>1YDV</pdbID>
<pdbChain>A</pdbChain>
<entryIDChain>1YDVA</entryIDChain>
<sequence>NLDFDPSKLDV</sequence>
<secondary-structure>G EE</secondary-structure>
<atom-coordinate>
<line>ATOM 212 CA ASN A 29 28.577 16.289 3.271 1.00 8.63 C </line>
<line>ATOM 220 CA LEU A 30 25.168 14.585 3.457 1.00 14.20 C </line>
<line>ATOM 228 CA ASP A 31 22.128 16.859 3.341 1.00 17.80 C </line>
<line>ATOM 236 CA PHE A 32 19.261 15.635 5.557 1.00 16.42 C </line>
<line>ATOM 247 CA ASP A 33 16.813 16.894 8.196 1.00 14.21 C </line>
<line>ATOM 255 CA PRO A 34 17.376 15.632 11.781 1.00 9.47 C </line>
<line>ATOM 262 CA SER A 35 13.696 16.245 12.681 1.00 15.47 C </line>
<line>ATOM 268 CA LYS A 36 12.514 13.545 10.243 1.00 15.37 C </line>
<line>ATOM 277 CA LEU A 37 15.186 10.913 10.493 1.00 12.76 C </line>
<line>ATOM 285 CA ASP A 38 17.317 9.695 13.419 1.00 9.57 C </line>
<line>ATOM 293 CA VAL A 39 20.982 9.082 12.533 1.00 8.95 C </line>
</atom-coordinate>
<distance-map>
<line> VAL ASP LEU LYS SER PRO ASP PHE ASP LEU ASN </line>
<line> CA CA CA CA CA CA CA CA CA CA CA </line>
<line>ASN CA 13.98 16.53 16.14 17.72 17.61 14.08 12.77 9.61 6.47 3.82 </line>
<line>LEU CA 11.41 13.59 12.75 14.40 14.81 11.45 9.88 6.36 3.80 </line>
<line>ASP CA 12.09 13.27 11.61 12.29 12.60 9.76 7.20 3.82 </line>
<line>PHE CA 9.72 10.04 7.95 8.48 9.06 6.50 3.81 </line>
<line>ASP CA 9.86 8.91 6.61 5.82 5.50 3.84 </line>
<line>PRO CA 7.51 6.16 5.36 5.51 3.84 </line>
<line>SER CA 10.22 7.52 5.95 3.83 </line>
<line>LYS CA 9.84 6.93 3.76 </line>
<line>LEU CA 6.41 3.82 </line>
<line>ASP CA 3.82 </line>
<line>VAL CA </line>
</distance-map>
<n14>
<line>ASN CA 235</line>
<line>LEU CA 278</line>
<line>ASP CA 228</line>
<line>PHE CA 254</line>
<line>ASP CA 216</line>
<line>PRO CA 259</line>
<line>SER CA 202</line>
<line>LYS CA 222</line>
<line>LEU CA 324</line>
<line>ASP CA 415</line>
<line>VAL CA 495</line>
</n14>
</entryChain>
<parallel>
<x>-18.97100067138672</x>
<y>10.177000045776367</y>
<z>-14.706999778747559</z>
</parallel>
<rotation>
<x>0.8709999918937683</x>
<y>0.45100000500679016</y>
<z>0.19499999284744263</z>
<x>0.2549999952316284</x>
<y>-0.7540000081062317</y>
<z>0.6060000061988831</z>
<x>0.41999998688697815</x>
<y>-0.4779999852180481</y>
<z>-0.7710000276565552</z>
</rotation>
<rmsd>1.7594139575958252</rmsd>
<dmax>3.4195969104766846</dmax>
</indel>