MolNFT v1 · #119691 · protein
Crystal structure of adenylate kinase ancestor 1 with zn and ADP bound
5G3Y · Adenylate kinse: “Crystal structure of adenylate kinase ancestor 1 with zn and ADP bound”. X-ray diffraction, 2 ligands (ADP, ZN), 2 pockets (best druggability 0.83). MolNFT v1 #119691 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5G3Y
- Type
- protein
- Length
- 213 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenylate kinse
- EC
- 2.7.4.3
- Ligands
- ADP, ZN
- Pockets
- 2 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenylate kinse (EC 2.7.4.3) | protein | 213 | 49% helix, 16% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 368 | 0.83 | 0.92 | 51 | ADP |
| 2 | 105 | 0.41 | 0.76 | 18 | empty |
Compared structures
- 5G3Y · Crystal structure of adenylate kinase ancestor 1 with Zn and ADP bound · 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 5G3Y · PDBe 5G3Y
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