SMTL ID : 1zmi.6 (5 other biounits)

Crystal structure of human alpha_defensin-2 (variant GLY16->D-ALA), P 32 2 1 space group )

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

homo-tetramer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: C.3, Y.20, W.25 Chain B: F.27 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.3 Water bridges: A:C.3, A:C.3 GOL.2: 6 residues within 4Å: Chain A: P.6, A.7, I.9 Chain C: I.5, R.23, W.25 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:A.7, A:A.7, C:R.23, C:R.23 Water bridges: C:I.5, C:I.5 GOL.6: 5 residues within 4Å: Chain A: C.1, F.27 Chain B: Y.2, C.3, Y.20 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:C.3, B:C.3, B:Y.20 GOL.7: 7 residues within 4Å: Chain B: R.4, I.5, P.6, R.14, L.24, W.25, A.26 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.4, B:R.14, B:R.14, B:A.26

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain B: R.13, C.29 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:C.29 Salt bridges: B:R.13 SO4.4: 1 residues within 4Å: Chain B: G.11 1 PLIP interactions: 1 interactions with chain B Water bridges: B:G.11 SO4.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, C. et al., Reconstruction of the conserved beta-bulge in mammalian defensins using D-amino acids. J.Biol.Chem. (2005)

Release Date

2005-08-16

Peptides

Neutrophil defensin 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Neutrophil defensin 2

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