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Loop deletion mutant of paracoccus denitrificans aztc

Analyse Loop deletion mutant of paracoccus denitrificans aztc in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5KZJ
Type: protein
Length: 543 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Periplasmic solute binding protein
UniProt: A1B2F3
Ligands: ZN
Pockets: 2 · best druggability 0.69

Structure

x-ray diffraction · 2 distinct chains · 48% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Periplasmic solute binding protein	protein	272	49% helix, 15% strand	A1B2F3
B	Periplasmic solute binding protein	protein	271	48% helix, 15% strand	A1B2F3

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A, B
GOL · Glycerol · additive · 2 copies · chains A

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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	797	0.69	0.76	56	empty
2	84	0.39	0.77	18	empty

Interfaces

1 interface between chains.

A–B · 508 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

5KZJ · Loop Deletion mutant of Paracoccus denitrificans AztC · 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 A1B2F3
Elsewhere: RCSB PDB 5KZJ · PDBe 5KZJ · UniProt A1B2F3

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