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Crystal structure of the putative arginine deiminase from porphyromonas gingivalis, northeast structural genomics target PGR3

Analyse Crystal structure of the putative arginine deiminase from porphyromonas… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1ZBR
Type: protein
Length: 678 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Conserved hypothetical protein
UniProt: Q7MXM8
Pockets: 4 · best druggability 0.72

Structure

x-ray diffraction · 1 distinct chain · 29% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Conserved hypothetical protein	protein	339	29% helix, 29% strand	Q7MXM8

Pockets

4 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	58	0.72	0.98	22	empty
2	60	0.71	0.97	22	empty
3	139	0.70	0.90	41	empty
4	121	0.52	0.81	25	empty

Interfaces

1 interface between chains.

A–B · 735 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 14 modified (engineered).

Compared structures

1ZBR · Crystal Structure of the Putative Arginine Deiminase from Porphyromonas gingivalis… · 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 Q7MXM8
Elsewhere: RCSB PDB 1ZBR · PDBe 1ZBR · UniProt Q7MXM8

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