MolNFT v1 · #112532 · protein

Aidc, a dizinc quorum-quenching lactonase

4ZO2 · Acylhomoserine lactonase: “Aidc, a dizinc quorum-quenching lactonase”. X-ray diffraction, 1 ligand (ZN), 5 pockets (best druggability 0.80). MolNFT v1 #112532 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4ZO2
Type: protein
Length: 587 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Acylhomoserine lactonase
UniProt: I7HB71
Ligands: ZN
Pockets: 5 · best druggability 0.80

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Acylhomoserine lactonase	protein	293	32% helix, 28% strand	I7HB71
B	Acylhomoserine lactonase	protein	294	32% helix, 28% strand	I7HB71

Ligands and binding sites

ZN · Zinc ion · metal · 4 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1063	0.80	0.81	88	empty
2	439	0.69	0.80	33	empty
3	342	0.67	0.81	34	empty
4	216	0.55	0.78	32	empty
5	57	0.35	0.78	15	empty

Interfaces

1 interface between chains.

A–B · 1072 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

4ZO2 · AidC, a Dizinc Quorum-Quenching Lactonase · 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 I7HB71
Elsewhere: RCSB PDB 4ZO2 · PDBe 4ZO2 · UniProt I7HB71

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