MolNFT v1 · #34068 · protein

Crystal structure of arabinofuranosidase complexed with arabinotriose

2D43 · Alpha-L-arabinofuranosidase B: “Crystal structure of arabinofuranosidase complexed with arabinotriose”. X-ray diffraction, 2 ligands (AHR, NAG), 4 pockets (best druggability 0.58). MolNFT v1 #34068 on GenesisL1: 3D structure…

PDB: 2D43
Type: protein
Length: 482 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alpha-L-arabinofuranosidase B
EC: 3.2.1.55
Ligands: AHR, NAG
Pockets: 4 · best druggability 0.58

Structure

x-ray diffraction · 1 distinct chain · 11% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Alpha-L-arabinofuranosidase B (EC 3.2.1.55)	protein	482	11% helix, 37% strand	—

Ligands and binding sites

AHR · alpha-L-arabinofuranose · sugar · 4 copies · chains A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 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	200	0.58	0.80	36	AHR
2	143	0.49	0.79	24	empty
3	55	0.45	0.84	16	empty
4	58	0.40	0.81	21	empty

Modifications

Observed in the structure: 4 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

2D43 · Crystal structure of arabinofuranosidase complexed with arabinotriose · 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 2D43 · PDBe 2D43

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