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Crystal structure of vibrio harveyi chitinase a complexed with pentasaccharide

Analyse Crystal structure of vibrio harveyi chitinase a complexed with pentasaccharide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3B9D
Type: protein
Length: 567 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Chitinase a
EC: 3.2.1.14
UniProt: Q9AMP1
Ligands: NAG
Pockets: 4 · best druggability 0.73

Structure

x-ray diffraction · 1 distinct chain · 30% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Chitinase a (EC 3.2.1.14)	protein	567	30% helix, 25% strand	Q9AMP1

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 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	822	0.73	0.78	85	NAG
2	165	0.43	0.74	31	empty
3	104	0.38	0.75	23	empty
4	66	0.29	0.74	22	empty

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

3B9D · Crystal structure of Vibrio harveyi chitinase A complexed with pentasaccharide · the same entry in another collection · chain A against A, TM-score 1.00

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q9AMP1
Elsewhere: RCSB PDB 3B9D · PDBe 3B9D · UniProt Q9AMP1

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