MolNFT v1 · #134721 · protein

The crystal structure of the dominant negative mutant G protein ALPHA(I)-1-beta-1-gamma-2 G203A/A326S

5TDH · Guanine nucleotide-binding protein G(I) subunit alpha-1: “The crystal structure of the dominant negative mutant G protein ALPHA(I)-1-beta-1-gamma-2 G203A/A326S”. X-ray diffraction, 1 ligand (GDP), 16 pockets (best druggability…

PDB: 5TDH
Type: protein
Length: 1,461 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Guanine nucleotide-binding protein G(I) subunit alpha-1; Guanine nucleotide-binding…
UniProt: P63096, P54311, P63212
Ligands: GDP
Pockets: 16 · best druggability 0.82

Structure

x-ray diffraction · 4 distinct chains · 39% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Guanine nucleotide-binding protein G(I) subunit alpha-1	protein	337	53% helix, 12% strand	P63096
B, J	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	protein	339	9% helix, 47% strand	P54311
G, K	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	protein	55	56% helix, 0% strand	P63212
H	Guanine nucleotide-binding protein G(I) subunit alpha-1	protein	336	54% helix, 12% strand	P63096

Ligands and binding sites

GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, H

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

Pockets

16 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	869	0.82	0.84	64	empty
2	1105	0.80	0.81	84	empty
3	778	0.76	0.81	77	GDP
4	779	0.75	0.80	76	GDP
5	243	0.52	0.76	30	empty

Interfaces

6 interfaces between chains.

B–G · 2218 Å² buried · 20 hydrogen bonds · protein-protein
J–K · 2199 Å² buried · 23 hydrogen bonds · protein-protein
H–J · 1263 Å² buried · 17 hydrogen bonds · protein-protein
A–B · 1252 Å² buried · 20 hydrogen bonds · protein-protein
B–K · 95 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

P54311 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain B against A, TM-score 0.99
P63096 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain H against A, TM-score 0.92
P63212 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain G against A, TM-score 0.66

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 P63096
Every structure of UniProt P54311
Every structure of UniProt P63212
Elsewhere: RCSB PDB 5TDH · PDBe 5TDH · UniProt P63096 · UniProt P54311 · UniProt P63212

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