Crystal structure of human neutrophil peptide 2, hnp-2 (variant GLY16- > D-ala)

Structure

x-ray diffraction · 1 distinct chain · 0% helix, 55% strand (DSSP).

Ligands and binding sites

• SO4 · Sulfate ion · ion · 3 copies · chains B, C
• GOL · Glycerol · additive · 2 copies · chains B, C, D
• P6G · Hexaethylene glycol · additive · chains A, B

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

Interfaces

2 interfaces between chains.

• C–D · 400 Ų buried · 5 hydrogen bonds · protein-protein
• A–B · 377 Ų buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide, 4 d-amino (disulfide, D-amino acid).

Compared structures

• 1ZMH · Crystal structure of human neutrophil peptide 2, HNP-2 (variant Gly16-> D-Ala) · the same entry in another collection · chain D against D, TM-score 1.00
• P59666 · AlphaFold monomer V2.0 prediction for neutrophil defensin 3 (P59666) · a predicted model of the same protein · chain C against A, TM-score 0.87

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 P59666
• Elsewhere: RCSB PDB 1ZMH · PDBe 1ZMH · UniProt P59666