Research workbench

PagF single mutant with GPP

Analyse PagF single mutant with GPP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PGN
Type: protein
Length: 297 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.85
Source: Planktothrix agardhii
Molecule: PagF
EC: 2.-.-.-
UniProt: A0A1J1JDI6
Ligands: GPP, MG
Pockets: 2 · best druggability 0.74

Structure

x-ray diffraction · resolution 1.85 · 1 distinct chain · 42% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	PagF (EC 2.-.-.-)	protein	297	42% helix, 29% strand	A0A1J1JDI6

Ligands and binding sites

GPP · Geranyl diphosphate · ligand · chains A
MG · Magnesium ion · metal · chains A

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

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	534	0.74	0.82	61	MG, GPP
2	120	0.51	0.80	18	empty

Compared structures

6PGN · Pagf single mutant with gpp · 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 A0A1J1JDI6
Elsewhere: RCSB PDB 6PGN · PDBe 6PGN · UniProt A0A1J1JDI6

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