MolNFT v1 · #90864 · protein
The liganded structure of C. bescii family 3 pectate lyase
4EW9: “The liganded structure of C. bescii family 3 pectate lyase”. X-ray diffraction, 4 ligands (AQA, DGU, ADA). MolNFT v1 #90864 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4EW9
- Type
- protein
- Length
- 390 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pectate lyase
- EC
- 4.2.2.2
- UniProt
- B9MKT4
- Ligands
- AQA, DGU, ADA, CA
Structure
x-ray diffraction · 1 distinct chain · 2% helix, 59% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Pectate lyase (EC 4.2.2.2) | protein | 195 | 2% helix, 59% strand | B9MKT4 |
Ligands and binding sites
- AQA · 4-deoxy-beta-L-threo-hex-4-enopyranuronic acid · ligand · 2 copies · chains A, B
- DGU · D-galacturonic acid · ligand · 2 copies · chains A, B
- ADA · alpha-D-galactopyranuronic acid · sugar · 3 copies · chains A, B
- CA · Calcium ion · metal · 9 copies · chains A, B
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 4 copies · chains A, B
- ACT · Acetate ion · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 516 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 4EW9 · The liganded structure of C. bescii family 3 pectate lyase · 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 B9MKT4
- Elsewhere: RCSB PDB 4EW9 · PDBe 4EW9 · UniProt B9MKT4
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