Research workbench

BP0997, GH138 enzyme targeting pectin rhamnogalacturonan II

Analyse BP0997, GH138 enzyme targeting pectin rhamnogalacturonan II in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6HZG
Type: protein
Length: 694 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: BPA0997 N-ter E361S
Ligands: GTR, ADA, NA, CL
Pockets: 4 · best druggability 0.62

Structure

x-ray diffraction · 1 distinct chain · 51% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	BPA0997 N-ter E361S	protein	694	51% helix, 13% strand	—

Ligands and binding sites

GTR · beta-D-galactopyranuronic acid · ligand · 2 copies · chains A
ADA · alpha-D-galactopyranuronic acid · sugar · chains A
NA · Sodium ion · metal · chains A
CL · Chloride ion · ion · chains A

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

Pockets

4 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	422	0.62	0.77	47	ADA, GTR
2	369	0.58	0.76	34	empty
3	284	0.53	0.75	41	empty
4	74	0.32	0.74	13	empty

Compared structures

6HZG · BP0997, GH138 enzyme targeting pectin rhamnogalacturonan II · 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
Elsewhere: RCSB PDB 6HZG · PDBe 6HZG

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