MolNFT v1 · #56491 · protein
Parm with gmppnp
2ZGZ · Plasmid segregation protein parm: “Parm with gmppnp”. X-ray diffraction, 2 ligands (GNP, MG), 4 pockets (best druggability 0.86). MolNFT v1 #56491 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2ZGZ
- Type
- protein
- Length
- 640 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Plasmid segregation protein parm
- UniProt
- P11904
- Ligands
- GNP, MG
- Pockets
- 4 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Plasmid segregation protein parm | protein | 320 | 38% helix, 26% strand | P11904 |
Ligands and binding sites
- GNP · Phosphoaminophosphonic acid-guanylate ester · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1189 | 0.86 | 0.88 | 156 | MG, GNP |
| 2 | 228 | 0.68 | 0.85 | 24 | empty |
| 3 | 120 | 0.37 | 0.74 | 19 | empty |
| 4 | 63 | 0.28 | 0.73 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1154 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
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 P11904
- Elsewhere: RCSB PDB 2ZGZ · PDBe 2ZGZ · UniProt P11904
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