SMTL ID : 1zmk.2 (1 other biounit)

Crystal structure of human alpha-defensin-2 (variant Gly16-> D-ALA), P 42 21 2 space group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-octamer

Ligands

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 2 residues within 4Å: Chain A: C.1 Chain B: C.1 Ligand excluded by PLIP CL.2: 7 residues within 4Å: Chain B: R.23 Chain D: R.23 Chain F: R.23 Chain H: R.23 Ligands: CL.5, CL.8, CL.11 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain C: C.1 Chain D: C.1 Ligand excluded by PLIP CL.5: 7 residues within 4Å: Chain B: R.23 Chain D: R.23 Chain F: R.23 Chain H: R.23 Ligands: CL.2, CL.8, CL.11 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain E: C.1 Chain F: C.1 Ligand excluded by PLIP CL.8: 7 residues within 4Å: Chain B: R.23 Chain D: R.23 Chain F: R.23 Chain H: R.23 Ligands: CL.2, CL.5, CL.11 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain G: C.1 Chain H: C.1 Ligand excluded by PLIP CL.11: 7 residues within 4Å: Chain B: R.23 Chain D: R.23 Chain F: R.23 Chain H: R.23 Ligands: CL.2, CL.5, CL.8 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain B: R.14, T.17, L.24, W.25, A.26 Chain D: G.22 Chain H: R.23 6 PLIP interactions: 1 interactions with chain H, 1 interactions with chain D, 4 interactions with chain B Water bridges: H:R.23, D:G.22, B:P.6 Hydrogen bonds: B:R.14, B:R.14, B:T.17 GOL.6: 7 residues within 4Å: Chain B: G.22 Chain D: R.14, T.17, L.24, W.25, A.26 Chain F: R.23 6 PLIP interactions: 4 interactions with chain D, 1 interactions with chain F, 1 interactions with chain B Hydrogen bonds: D:R.14, D:R.14, D:T.17 Water bridges: D:P.6, F:R.23, B:G.22 GOL.9: 7 residues within 4Å: Chain D: R.23 Chain F: R.14, T.17, L.24, W.25, A.26 Chain H: G.22 6 PLIP interactions: 4 interactions with chain F, 1 interactions with chain D, 1 interactions with chain H Hydrogen bonds: F:R.14, F:R.14, F:T.17 Water bridges: F:P.6, D:R.23, H:G.22 GOL.12: 7 residues within 4Å: Chain B: R.23 Chain F: G.22 Chain H: R.14, T.17, L.24, W.25, A.26 6 PLIP interactions: 4 interactions with chain H, 1 interactions with chain F, 1 interactions with chain B Hydrogen bonds: H:R.14, H:R.14, H:T.17 Water bridges: H:P.6, F:G.22, B:R.23

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: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

Neutrophil defensin 2

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