Research workbench

Crystal structure of N-terminal G-domain of enga from bacillus subtilis

Analyse Crystal structure of N-terminal G-domain of enga from bacillus subtilis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5X4B
Type: protein
Length: 296 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: GTPase der
UniProt: P50743
Ligands: GDP, K, MG, NA
Pockets: 2 · best druggability 0.54

Structure

x-ray diffraction · 2 distinct chains · 39% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	GTPase der	protein	152	39% helix, 24% strand	P50743
B	GTPase der	protein	144	40% helix, 23% strand	P50743

Ligands and binding sites

GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, B
K · Potassium ion · metal · 3 copies · chains A, B
MG · Magnesium ion · metal · 2 copies · chains A, B
NA · Sodium ion · metal · chains B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	154	0.54	0.80	29	K
2	60	0.26	0.72	22	NA

Interfaces

1 interface between chains.

A–B · 643 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

5X4B · Crystal Structure of N-terminal G-domain of EngA from Bacillus subtilis · the same entry in another collection · chain A against A, TM-score 1.00
P50743 · AlphaFold monomer V2.0 prediction for GTPase der (P50743) · a predicted model of the same protein · chain B against A, TM-score 0.99

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 P50743
Elsewhere: RCSB PDB 5X4B · PDBe 5X4B · UniProt P50743

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