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-2V2DA
confEVID 1YDVA-2V2DA
pdbIDA 1YDV
pdbIDB 2V2D
pdbChainA A
pdbChainB A
identity 0.381500005722046
indelSize 3
alignment <alignment>
<seq1>--RKYFVAANWKCNGTLESIKSLTNSFNNLDFDPSKLDVVVFPVSVHYDHTRKLLQ-SKFSTGIQNVSKFGNGSYTGEVSAEIAKDLNIEYVIIGHFERRKYFHETDEDVREKLQASLKNNLKAVVCFGESLEQREQNKTIEVITKQVKAFVDLID--NFDNVILVYEPLWAIGTGKTATPEQAQLVHKEIRKIVKDTCGEKQANQIRILYGGSVNTENCSSLIQQEDIDGFLVGNASLKESFVDIIKSAM</seq1>
<seq2>SKPQPIAAANWK-SGSPDSLSELIDLFNSTSIN-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 -------- HHHHHHHH EEEE HHHH HHHHHHHHHHHH EEEEEE HHHHH HHHHHHHHHHHGGG GGGGGG EEEE HHHHHHHHHHHHHHH HHHHHH EEE HHHHHHHH EEEE GGG HHHHGGG </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>2V2D</pdbID>
<pdbChain>A</pdbChain>
<entryIDChain>2V2DA</entryIDChain>
<sequence>KERLSHPKFVI</sequence>
<secondary-structure>HHH EE</secondary-structure>
<atom-coordinate>
<line>ATOM 368 CA LYS A 52 -41.498 -9.785 5.366 1.00 18.52 C </line>
<line>ATOM 377 CA GLU A 53 -44.202 -8.552 7.816 1.00 18.75 C </line>
<line>ATOM 386 CA ARG A 54 -42.353 -8.852 11.140 1.00 16.53 C </line>
<line>ATOM 397 CA LEU A 55 -38.693 -9.796 10.476 1.00 15.88 C </line>
<line>ATOM 405 CA SER A 56 -36.411 -6.768 10.698 1.00 16.15 C </line>
<line>ATOM 411 CA HIS A 57 -32.687 -7.256 11.204 1.00 14.10 C </line>
<line>ATOM 421 CA PRO A 58 -29.968 -5.478 9.156 1.00 14.32 C </line>
<line>ATOM 428 CA LYS A 59 -28.328 -8.813 8.403 1.00 13.91 C </line>
<line>ATOM 437 CA PHE A 60 -31.374 -10.844 7.304 1.00 14.12 C </line>
<line>ATOM 448 CA VAL A 61 -32.890 -11.108 3.877 1.00 15.42 C </line>
<line>ATOM 455 CA ILE A 62 -35.741 -13.337 2.610 1.00 14.26 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 7.30 8.84 10.36 13.55 12.88 10.87 7.96 5.83 5.91 3.85 </line>
<line>GLU CA 11.03 12.25 13.04 15.89 14.62 12.07 8.50 6.24 3.82 </line>
<line>ARG CA 11.69 12.14 11.80 14.29 12.99 9.80 6.31 3.84 </line>
<line>LEU CA 9.12 8.88 8.05 10.62 9.82 6.56 3.80 </line>
<line>SER CA 10.44 8.82 7.31 8.65 6.75 3.79 </line>
<line>HIS CA 10.96 8.28 5.46 5.41 3.84 </line>
<line>PRO CA 11.74 8.25 5.85 3.79 </line>
<line>LYS CA 10.44 6.82 3.82 </line>
<line>PHE CA 6.88 3.76 </line>
<line>VAL CA 3.83 </line>
<line>ILE CA </line>
</distance-map>
<n14>
<line>LYS CA 312</line>
<line>GLU CA 242</line>
<line>ARG CA 253</line>
<line>LEU CA 311</line>
<line>SER CA 260</line>
<line>HIS CA 271</line>
<line>PRO CA 236</line>
<line>LYS CA 318</line>
<line>PHE CA 407</line>
<line>VAL CA 410</line>
<line>ILE CA 461</line>
</n14>
</entryChain>
<parallel>
<x>65.06400299072266</x>
<y>25.145999908447266</y>
<z>6.105999946594238</z>
</parallel>
<rotation>
<x>-0.9430000185966492</x>
<y>-0.03099999949336052</y>
<z>-0.33000001311302185</z>
<x>-0.11599999666213989</x>
<y>0.9639999866485596</y>
<z>0.2409999966621399</z>
<x>0.3109999895095825</x>
<y>0.26600000262260437</y>
<z>-0.9129999876022339</z>
</rotation>
<rmsd>1.8341039419174194</rmsd>
<dmax>3.5161890983581543</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>2V2D</pdbID>
<pdbChain>A</pdbChain>
<entryIDChain>2V2DA</entryIDChain>
<sequence>AKKLKKADWAKV</sequence>
<secondary-structure>GGG GGGGGG </secondary-structure>
<atom-coordinate>
<line>ATOM 1073 CA ALA A 151 -21.438 -22.217 -15.749 1.00 12.73 C </line>
<line>ATOM 1078 CA LYS A 152 -22.390 -22.878 -19.404 1.00 13.58 C </line>
<line>ATOM 1087 CA LYS A 153 -25.448 -20.557 -19.062 1.00 14.39 C </line>
<line>ATOM 1096 CA LEU A 154 -23.574 -17.811 -17.180 1.00 14.49 C </line>
<line>ATOM 1104 CA LYS A 155 -21.252 -14.936 -18.120 1.00 17.00 C </line>
<line>ATOM 1113 CA LYS A 156 -18.207 -14.194 -15.913 1.00 17.98 C </line>
<line>ATOM 1122 CA ALA A 157 -19.993 -11.144 -14.414 1.00 18.00 C </line>
<line>ATOM 1127 CA ASP A 158 -23.024 -13.253 -13.414 1.00 16.20 C </line>
<line>ATOM 1135 CA TRP A 159 -20.947 -14.998 -10.741 1.00 15.89 C </line>
<line>ATOM 1149 CA ALA A 160 -21.115 -11.874 -8.613 1.00 16.09 C </line>
<line>ATOM 1154 CA LYS A 161 -24.747 -12.890 -7.918 1.00 15.13 C </line>
<line>ATOM 1163 CA VAL A 162 -24.122 -16.615 -7.542 1.00 13.51 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 10.29 12.62 12.57 8.80 9.40 11.25 8.65 7.66 5.10 5.46 3.83 </line>
<line>LYS CA 13.53 15.40 15.46 11.80 11.35 12.97 10.25 8.13 5.66 3.85 </line>
<line>LYS CA 12.25 13.54 14.26 10.97 9.55 11.83 10.14 7.08 3.82 </line>
<line>LEU CA 9.73 10.55 10.71 7.50 5.94 8.06 6.59 3.81 </line>
<line>LYS CA 11.09 10.98 9.99 7.39 5.30 5.45 3.83 </line>
<line>LYS CA 10.53 10.41 8.19 5.91 5.51 3.84 </line>
<line>ALA CA 9.71 8.24 5.95 5.41 3.83 </line>
<line>ASP CA 6.85 5.77 5.35 3.81 </line>
<line>TRP CA 4.79 5.18 3.78 </line>
<line>ALA CA 5.72 3.83 </line>
<line>LYS CA 3.80 </line>
<line>VAL CA </line>
</distance-map>
<n14>
<line>ALA CA 379</line>
<line>LYS CA 258</line>
<line>LYS CA 267</line>
<line>LEU CA 299</line>
<line>LYS CA 237</line>
<line>LYS CA 239</line>
<line>ALA CA 221</line>
<line>ASP CA 302</line>
<line>TRP CA 377</line>
<line>ALA CA 319</line>
<line>LYS CA 366</line>
<line>VAL CA 472</line>
</n14>
</entryChain>
<parallel>
<x>31.378999710083008</x>
<y>18.393999099731445</y>
<z>43.26300048828125</z>
</parallel>
<rotation>
<x>-0.9200000166893005</x>
<y>-0.15299999713897705</y>
<z>-0.36000001430511475</z>
<x>-0.1770000010728836</x>
<y>0.984000027179718</y>
<z>0.03500000014901161</z>
<x>0.3490000069141388</x>
<y>0.09600000083446503</y>
<z>-0.9319999814033508</z>
</rotation>
<rmsd>1.2022680044174194</rmsd>
<dmax>1.76808500289917</dmax>
</indel>
<indel>
<confEVID></confEVID>
<index>2</index>
<entryChain>
<pdbID>2V2D</pdbID>
<pdbChain>A</pdbChain>
<entryIDChain>2V2DA</entryIDChain>
<sequence>STSIN-HDVQC</sequence>
<secondary-structure> - E</secondary-structure>
<atom-coordinate>
<line>ATOM 205 CA SER A 30 -33.322 -9.695 19.107 1.00 13.00 C </line>
<line>ATOM 211 CA THR A 31 -30.058 -11.358 18.020 1.00 13.38 C </line>
<line>ATOM 218 CA SER A 32 -26.932 -9.192 18.023 1.00 12.54 C </line>
<line>ATOM 224 CA ILE A 33 -24.507 -10.370 15.379 1.00 13.51 C </line>
<line>ATOM 232 CA ASN A 34 -20.991 -8.910 15.498 1.00 13.84 C </line>
<line>ATOM 240 CA HIS A 35 -19.345 -9.887 12.209 1.00 12.44 C </line>
<line>ATOM 250 CA ASP A 36 -20.105 -9.417 8.513 1.00 12.14 C </line>
<line>ATOM 258 CA VAL A 37 -22.394 -12.301 7.484 1.00 11.62 C </line>
<line>ATOM 265 CA GLN A 38 -25.402 -12.439 5.184 1.00 13.06 C </line>
<line>ATOM 274 CA CYS A 39 -28.299 -14.257 6.787 1.00 14.89 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 14.07 16.25 16.16 16.94 15.59 12.87 9.59 6.50 3.82 </line>
<line>THR CA 11.73 13.70 13.06 13.90 12.28 9.72 6.23 3.80 </line>
<line>SER CA 12.40 13.33 11.89 11.71 9.58 6.46 3.78 </line>
<line>ILE CA 10.16 10.44 8.40 8.21 6.08 3.81 </line>
<line>ASN CA 12.56 11.76 8.81 7.06 3.81 </line>
<line>HIS CA 11.34 9.62 6.12 3.80 </line>
<line>ASP CA 9.67 6.95 3.82 </line>
<line>VAL CA 6.26 3.79 </line>
<line>GLN CA 3.78 </line>
<line>CYS CA </line>
</distance-map>
<n14>
<line>SER CA 203</line>
<line>THR CA 260</line>
<line>SER CA 222</line>
<line>ILE CA 259</line>
<line>ASN CA 197</line>
<line>HIS CA 234</line>
<line>ASP CA 251</line>
<line>VAL CA 360</line>
<line>GLN CA 422</line>
<line>CYS CA 492</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>-43.875</x>
<y>-25.261999130249023</y>
<z>7.124000072479248</z>
</parallel>
<rotation>
<x>-0.6600000262260437</x>
<y>-0.5299999713897705</y>
<z>0.5329999923706055</z>
<x>0.5009999871253967</x>
<y>0.21799999475479126</y>
<z>0.8370000123977661</z>
<x>0.5600000023841858</x>
<y>-0.8199999928474426</y>
<z>-0.12200000137090683</z>
</rotation>
<rmsd>1.77879798412323</rmsd>
<dmax>2.703289031982422</dmax>
</indel>