MolNFT v1 · #90984 · protein
Crystal structure of the substrate binding domain of E.COLI dnak in complex with an apidaecin fragment from the bumblebee (residues 3 to 11)
4F00 · Chaperone protein dnak: “Crystal structure of the substrate binding domain of E.COLI dnak in complex with an apidaecin fragment from…”. X-ray diffraction, 2 pockets (best druggability 0.54). MolNFT v1 #90984 on GenesisL1: 3D…
- PDB
- 4F00
- Type
- protein
- Length
- 226 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chaperone protein dnak; Apidaecin
- UniProt
- P0A6Y8, P81464
- Pockets
- 2 · best druggability 0.54
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chaperone protein dnak | protein | 219 | 42% helix, 26% strand | P0A6Y8 |
| B | Apidaecin | protein | 7 | 0% helix, 29% strand | P81464 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 121 | 0.54 | 0.82 | 21 | empty |
| 2 | 90 | 0.36 | 0.75 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 576 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 4F00 · Crystal structure of the substrate binding domain of E.coli DnaK in complex with an… · the same entry in another collection · chain A against A, TM-score 1.00
- P81464 · AlphaFold monomer V2.0 prediction for apidaecin (P81464) · a predicted model of the same protein · chain B against A, TM-score 0.63
- P0A6Y8 · AlphaFold monomer V2.0 prediction for chaperone protein dnak (P0A6Y8) · a predicted model of the same protein · chain A against A, TM-score 0.48
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P0A6Y8
- Every structure of UniProt P81464
- Elsewhere: RCSB PDB 4F00 · PDBe 4F00 · UniProt P0A6Y8 · UniProt P81464
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