MolNFT v1 · #168625 · protein + DNA

Crystal structure of a soluble variant of full-length human APOBEC3G (pH 7.6)

6WMA · Apolipoprotein B mRNA editing enzyme, catalytic peptide…: “Crystal structure of a soluble variant of full-length human APOBEC3G (pH 7.6)”. X-ray diffraction, 2 ligands (ZN, CL), 3 pockets (best druggability 0.75). MolNFT v1 #168625…

PDB: 6WMA
Type: protein + DNA
Length: 363 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Apolipoprotein B mRNA editing enzyme, catalytic peptide- like 3G; DNA (5'-D(P*CP*C)-3')
Ligands: ZN, CL
Pockets: 3 · best druggability 0.75

Structure

x-ray diffraction · 2 distinct chains · 39% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Apolipoprotein B mRNA editing enzyme, catalytic peptide- like 3G	protein	361	39% helix, 22% strand	—
B	DNA (5'-D(PCPC)-3')	dna	2	—	—

Ligands and binding sites

ZN · Zinc ion · metal · chains A
CL · Chloride ion · ion · chains A
GOL · Glycerol · additive · chains A

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

Pockets

3 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	521	0.75	0.83	49	empty
2	89	0.60	0.87	20	CL
3	105	0.47	0.79	21	empty

Interfaces

1 interface between chains.

A–B · 357 Å² buried · 10 hydrogen bonds · protein-nucleic

Compared structures

6WMA · Crystal structure of a soluble variant of full-length human APOBEC3G (pH 7.6) · 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
Elsewhere: RCSB PDB 6WMA · PDBe 6WMA

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