MolNFT v1 · #49756 · protein
Pectate lyase R236F from xanthomonas campestris
2QXZ · Pectate lyase II: “Pectate lyase R236F from xanthomonas campestris”. X-ray diffraction, 1 ligand (PO4), 2 pockets (best druggability 0.75). MolNFT v1 #49756 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2QXZ
- Type
- protein
- Length
- 660 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pectate lyase II
- UniProt
- Q8P6Z9
- Ligands
- PO4
- Pockets
- 2 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Pectate lyase II | protein | 330 | 11% helix, 38% strand | Q8P6Z9 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 3 copies · chains A, B
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 | 1188 | 0.75 | 0.78 | 97 | PO4 |
| 2 | 51 | 0.25 | 0.73 | 12 | PO4 |
Interfaces
1 interface between chains.
- A–B · 905 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2QXZ · pectate lyase R236F from Xanthomonas campestris · 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
- Every structure of UniProt Q8P6Z9
- Elsewhere: RCSB PDB 2QXZ · PDBe 2QXZ · UniProt Q8P6Z9
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