Research workbench

GTPase domain of septin 10 from schistosoma mansoni in complex with GDP

Analyse GTPase domain of septin 10 from schistosoma mansoni in complex with GDP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4KV9
Type: protein
Length: 499 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Septin
UniProt: G4VFI8
Ligands: GDP
Pockets: 6 · best druggability 0.72

Structure

x-ray diffraction · 2 distinct chains · 41% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Septin	protein	246	42% helix, 22% strand	G4VFI8
B	Septin	protein	253	41% helix, 23% strand	G4VFI8

Ligands and binding sites

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

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

Pockets

6 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	98	0.72	0.94	18	empty
2	197	0.57	0.80	37	GDP
3	165	0.57	0.81	38	GDP
4	154	0.50	0.78	30	empty
5	99	0.44	0.79	19	empty

Interfaces

1 interface between chains.

A–B · 979 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

4KV9 · GTPase domain of Septin 10 from Schistosoma mansoni in complex with GDP · 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 G4VFI8
Elsewhere: RCSB PDB 4KV9 · PDBe 4KV9 · UniProt G4VFI8

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