MolNFT v1 · #146023 · protein

Crystal structure of a Fc fragment of human IGG3

6D58 · Immunoglobulin heavy constant gamma 3: “Crystal structure of a Fc fragment of human IGG3”. X-ray diffraction, 4 ligands (NAG, MAN, BMA), 3 pockets (best druggability 0.41). MolNFT v1 #146023 on GenesisL1: 3D structure, binding sites…

PDB: 6D58
Type: protein
Length: 414 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Immunoglobulin heavy constant gamma 3
UniProt: P01860
Ligands: NAG, MAN, BMA, FUC
Pockets: 3 · best druggability 0.41

Structure

x-ray diffraction · 1 distinct chain · 12% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Immunoglobulin heavy constant gamma 3	protein	207	12% helix, 47% strand	P01860

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, B
MAN · alpha-D-mannopyranose · sugar · 4 copies · chains A, B
BMA · beta-D-mannopyranose · sugar · 2 copies · chains A, B
FUC · alpha-L-fucopyranose · sugar · 2 copies · chains A, B

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

Pockets

3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	91	0.41	0.78	18	empty
2	74	0.32	0.74	19	empty
3	58	0.30	0.76	15	empty

Interfaces

1 interface between chains.

A–B · 1096 Å² buried · 12 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).

Compared structures

6D58 · Crystal structure of a Fc fragment of Human IgG3 · the same entry in another collection · chain A against A, TM-score 1.00
P01860 · AlphaFold monomer V2.0 prediction for immunoglobulin heavy constant gamma 3 (P01860) · a predicted model of the same protein · chain A against A, TM-score 0.90

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 P01860
Elsewhere: RCSB PDB 6D58 · PDBe 6D58 · UniProt P01860

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.