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Crystal structure of trypanosoma brucei gambiense glycerol kinase (ligand-free form)

Analyse Crystal structure of trypanosoma brucei gambiense glycerol kinase (ligand-free… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3WXI
Type: protein
Length: 1,025 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycerol kinase
EC: 2.7.1.30
UniProt: D3KVM3
Pockets: 7 · best druggability 0.63

Structure

x-ray diffraction · 2 distinct chains · 37% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glycerol kinase (EC 2.7.1.30)	protein	513	37% helix, 23% strand	D3KVM3
B	Glycerol kinase (EC 2.7.1.30)	protein	512	37% helix, 22% strand	D3KVM3

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	447	0.63	0.77	47	empty
2	251	0.61	0.80	30	empty
3	233	0.58	0.80	32	empty
4	159	0.49	0.77	28	empty
5	93	0.37	0.75	19	empty

Interfaces

1 interface between chains.

A–B · 1436 Å² buried · 24 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

3WXI · Crystal structure of trypanosoma brucei gambiense glycerol kinase (ligand-free form) · the same entry in another collection · chain A against A, TM-score 1.00

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 D3KVM3
Elsewhere: RCSB PDB 3WXI · PDBe 3WXI · UniProt D3KVM3

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