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Structure of lgn GL4/GALPHAI3(Q147L) complex

Analyse Structure of lgn GL4/GALPHAI3(Q147L) complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4G5O
Type: protein
Length: 1,364 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Guanine nucleotide-binding protein G(K) subunit alpha; G-protein-signaling modulator 2
UniProt: P08754, Q8VDU0
Ligands: GDP, SO4
Pockets: 20 · best druggability 0.74

Structure

x-ray diffraction · 6 distinct chains · 51% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Guanine nucleotide-binding protein G(K) subunit alpha	protein	320	49% helix, 13% strand	P08754
B	Guanine nucleotide-binding protein G(K) subunit alpha	protein	315	51% helix, 13% strand	P08754
C	Guanine nucleotide-binding protein G(K) subunit alpha	protein	316	51% helix, 13% strand	P08754
D	Guanine nucleotide-binding protein G(K) subunit alpha	protein	324	51% helix, 13% strand	P08754
E, F, G	G-protein-signaling modulator 2	protein	22	59% helix, 5% strand	Q8VDU0
H	G-protein-signaling modulator 2	protein	23	52% helix, 4% strand	Q8VDU0

Ligands and binding sites

GDP · Guanosine-5'-diphosphate · ligand · 4 copies · chains A, E, B, F, C, G, D, H
SO4 · Sulfate ion · ion · 17 copies · chains A, B, C, D
CIT · Citric acid · additive · 4 copies · chains A, B, C, D

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

Pockets

20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	136	0.74	0.93	37	GDP
2	110	0.73	0.95	24	GDP
3	106	0.72	0.95	26	GDP
4	403	0.72	0.83	54	GDP
5	623	0.67	0.76	76	CIT, SO4

Interfaces

9 interfaces between chains.

B–F · 1515 Å² buried · 19 hydrogen bonds · protein-protein
D–H · 1407 Å² buried · 19 hydrogen bonds · protein-protein
C–G · 1370 Å² buried · 18 hydrogen bonds · protein-protein
A–E · 1360 Å² buried · 19 hydrogen bonds · protein-protein
A–C · 644 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

4G5O · Structure of LGN GL4/Galphai3(Q147L) complex · the same entry in another collection · chain H against H, TM-score 1.00
P08754 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain B against A, TM-score 0.96

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 P08754
Every structure of UniProt Q8VDU0
Elsewhere: RCSB PDB 4G5O · PDBe 4G5O · UniProt P08754 · UniProt Q8VDU0

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