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Crystal structure of the N-terminal domain of the pa subunit of dhori virus polymerase

Analyse Crystal structure of the N-terminal domain of the pa subunit of dhori virus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4CGS
Type: protein
Length: 337 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Polymerase subunit pa
UniProt: D6PT85
Pockets: 2 · best druggability 0.81

Structure

x-ray diffraction · 2 distinct chains · 45% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Polymerase subunit pa	protein	168	44% helix, 15% strand	D6PT85
B	Polymerase subunit pa	protein	169	46% helix, 15% strand	D6PT85

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains A, B

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

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1155	0.81	0.82	83	GOL
2	292	0.54	0.75	33	empty

Interfaces

1 interface between chains.

A–B · 809 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 modified (artifact).

Compared structures

4CGS · Crystal structure of the N-terminal domain of the PA subunit of Dhori virus polymerase · 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 D6PT85
Elsewhere: RCSB PDB 4CGS · PDBe 4CGS · UniProt D6PT85

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