MolNFT v1 · #178598 · protein

Dimeric immunoglobin a (diga)

7JG1 · Igh protein: “Dimeric immunoglobin a (diga)”. Electron microscopy, 1 ligand (NAG), 9 pockets (best druggability 0.76). MolNFT v1 #178598 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7JG1
Type: protein
Length: 1,045 residues
Chains: 5
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Igh protein; Immunoglobulin J chain
UniProt: Q99M22, P01592
Ligands: NAG
Pockets: 9 · best druggability 0.76

Structure

electron microscopy · 4 distinct chains · 9% helix, 44% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Igh protein	protein	231	9% helix, 42% strand	Q99M22
B	Igh protein	protein	224	9% helix, 46% strand	Q99M22
D	Igh protein	protein	228	11% helix, 43% strand	Q99M22
J	Immunoglobulin J chain	protein	131	3% helix, 47% strand	P01592

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains J, A, B, C, D

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

Pockets

9 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	756	0.76	0.81	68	empty
2	791	0.76	0.80	69	empty
3	94	0.50	0.82	17	empty
4	100	0.46	0.80	21	empty
5	138	0.45	0.76	22	empty

Interfaces

10 interfaces between chains.

C–D · 2035 Å² buried · 21 hydrogen bonds · protein-protein
C–J · 1949 Å² buried · 27 hydrogen bonds · protein-protein
A–J · 1896 Å² buried · 21 hydrogen bonds · protein-protein
A–B · 1786 Å² buried · 14 hydrogen bonds · protein-protein
A–C · 489 Å² buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 19 disulfide, 4 glycan (disulfide, N-glycosylation, O-glycosylation).

Compared structures

7JG1 · Dimeric Immunoglobin A (dIgA) · the same entry in another collection · chain A against A, TM-score 1.00
P01592 · AlphaFold monomer V2.0 prediction for immunoglobulin J chain (P01592) · a predicted model of the same protein · chain J against A, TM-score 0.93

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 Q99M22
Every structure of UniProt P01592
Elsewhere: RCSB PDB 7JG1 · PDBe 7JG1 · UniProt Q99M22 · UniProt P01592

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