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Aidc, a dizinc quorum-quenching lactonase, in complex with a product N-hexnoyl-L-homoserine

Analyse Aidc, a dizinc quorum-quenching lactonase, in complex with a product… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4ZO3
Type: protein
Length: 588 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Acylhomoserine lactonase
UniProt: I7HB71
Ligands: C6L, ZN
Pockets: 5 · best druggability 0.80

Structure

x-ray diffraction · 1 distinct chain · 33% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Acylhomoserine lactonase	protein	294	33% helix, 28% strand	I7HB71

Ligands and binding sites

C6L · N-hexanoyl-L-homoserine · ligand · 2 copies · chains A, B
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	929	0.80	0.82	86	empty
2	412	0.69	0.81	34	C6L
3	283	0.65	0.81	33	C6L
4	177	0.56	0.81	29	empty
5	57	0.35	0.78	19	empty

Interfaces

1 interface between chains.

A–B · 1021 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

4ZO3 · AidC, a Dizinc Quorum-Quenching Lactonase, in complex with a product… · 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 4ZO3 · PDBe 4ZO3 · UniProt I7HB71

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