MolNFT v1 · #58000 · protein

Apo form of arabidopsis MEDIUM/LONG-chain length prenyl pyrophosphate synthase

3APZ · Geranyl diphosphate synthase: “Apo form of arabidopsis MEDIUM/LONG-chain length prenyl pyrophosphate synthase”. X-ray diffraction, 8 pockets (best druggability 0.64). MolNFT v1 #58000 on GenesisL1: 3D structure, binding sites and…

PDB: 3APZ
Type: protein
Length: 598 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Geranyl diphosphate synthase
EC: 2.5.1.30
UniProt: Q9FT89
Pockets: 8 · best druggability 0.64

Structure

x-ray diffraction · 2 distinct chains · 76% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Geranyl diphosphate synthase (EC 2.5.1.30)	protein	299	75% helix, 0% strand	Q9FT89
B	Geranyl diphosphate synthase (EC 2.5.1.30)	protein	299	77% helix, 0% strand	Q9FT89

Pockets

8 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	407	0.64	0.78	44	empty
2	340	0.60	0.77	36	empty
3	181	0.52	0.77	21	empty
4	165	0.50	0.78	16	empty
5	117	0.44	0.77	23	empty

Interfaces

1 interface between chains.

A–B · 598 Å² buried · 9 hydrogen bonds · protein-protein

Compared structures

3APZ · Apo form of Arabidopsis medium/long-chain length prenyl pyrophosphate synthase · 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 Q9FT89
Elsewhere: RCSB PDB 3APZ · PDBe 3APZ · UniProt Q9FT89

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