MolNFT v1 · #174694 · protein

Crystal structure of MIRGB10

7C3K · Immunity-related GTPase family member B10: “Crystal structure of MIRGB10”. X-ray diffraction, 1 ligand (GDP), 9 pockets (best druggability 0.78). MolNFT v1 #174694 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7C3K
Type: protein
Length: 772 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Immunity-related GTPase family member B10
UniProt: U5NFV2
Ligands: GDP
Pockets: 9 · best druggability 0.78

Structure

x-ray diffraction · 2 distinct chains · 54% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Immunity-related GTPase family member B10	protein	383	54% helix, 10% strand	U5NFV2
B	Immunity-related GTPase family member B10	protein	389	53% helix, 10% strand	U5NFV2

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

9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1119	0.78	0.80	83	empty
2	589	0.65	0.76	44	empty
3	244	0.54	0.76	39	empty
4	195	0.50	0.76	21	empty
5	164	0.45	0.75	22	empty

Interfaces

1 interface between chains.

A–B · 418 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

7C3K · Crystal Structure of mIRGB10 · 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 U5NFV2
Elsewhere: RCSB PDB 7C3K · PDBe 7C3K · UniProt U5NFV2

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