MolNFT v1 · #162847 · protein

The crystal structure of abne, an arabino-oligosaccharide binding protein, in complex with arabinopentaose

6RKX · Arabino-oligosaccharids-binding protein: “The crystal structure of abne, an arabino-oligosaccharide binding protein, in complex with arabinopentaose”. X-ray diffraction, 2 ligands (AHR, CA), 4 pockets (best druggability 0.76).…

PDB: 6RKX
Type: protein
Length: 415 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Arabino-oligosaccharids-binding protein
UniProt: B3EYM9
Ligands: AHR, CA
Pockets: 4 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 47% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Arabino-oligosaccharids-binding protein	protein	415	47% helix, 16% strand	B3EYM9

Ligands and binding sites

AHR · alpha-L-arabinofuranose · sugar · 5 copies · chains A
CA · Calcium ion · metal · chains A
GOL · Glycerol · additive · 3 copies · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	848	0.76	0.79	75	AHR, GOL
2	137	0.46	0.77	23	GOL
3	69	0.39	0.79	15	empty
4	74	0.35	0.76	19	empty

Compared structures

6RKX · The crystal structure of AbnE, an arabino-oligosaccharide binding protein, in complex… · 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 B3EYM9
Elsewhere: RCSB PDB 6RKX · PDBe 6RKX · UniProt B3EYM9

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