Research workbench
Crystal structure of reconstructed archaeal ancestral ndk, ARC1
Analyse Crystal structure of reconstructed archaeal ancestral ndk, ARC1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3VVT
- Type
- protein
- Length
- 278 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoside diphosphate kinase
- EC
- 2.7.4.6
- Pockets
- 3 · best druggability 0.51
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Nucleoside diphosphate kinase (EC 2.7.4.6) | protein | 139 | 46% helix, 17% strand | — |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 189 | 0.51 | 0.77 | 24 | empty |
| 2 | 188 | 0.46 | 0.75 | 30 | empty |
| 3 | 105 | 0.40 | 0.76 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 961 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 3VVT · Crystal structure of reconstructed archaeal ancestral NDK, Arc1 · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 3VVT · PDBe 3VVT
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