MolNFT v1 · #32307 · protein

High resolution structure of GDP-bound human RAB4A

2BMD · RAS-related protein RAB4A: “High resolution structure of GDP-bound human RAB4A”. X-ray diffraction, 1 ligand (GDP), 1 pocket (best druggability 0.28). MolNFT v1 #32307 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2BMD
Type: protein
Length: 173 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RAS-related protein RAB4A
EC: 3.6.5.2
UniProt: P20338
Ligands: GDP
Pockets: 1 · best druggability 0.28

Structure

x-ray diffraction · 1 distinct chain · 35% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RAS-related protein RAB4A (EC 3.6.5.2)	protein	173	35% helix, 25% strand	P20338

Ligands and binding sites

GDP · Guanosine-5'-diphosphate · ligand · chains A
GOL · Glycerol · additive · 2 copies · chains A

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

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	60	0.28	0.73	13	empty

Compared structures

2BMD · high resolution structure of GDP-bound human Rab4a · the same entry in another collection · chain A against A, TM-score 1.00
P20338 · AlphaFold monomer V2.0 prediction for RAS-related protein rab-4A (P20338) · a predicted model of the same protein · chain A against A, TM-score 0.95

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 P20338
Elsewhere: RCSB PDB 2BMD · PDBe 2BMD · UniProt P20338

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