SMTL ID : 5cui.2 (2 other biounits)

Crystal structure of Human Defensin-5 R28A mutant.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: E.21, I.22, S.23, G.24 Chain C: L.16 Ligand excluded by PLIP CL.2: 3 residues within 4Å: Chain A: R.25, L.26 Chain C: R.9 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain B: R.6, T.7 Ligand excluded by PLIP CL.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain C: R.6, T.7 Ligand excluded by PLIP CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain D: R.6, T.7, G.8 Ligand excluded by PLIP CL.13: 5 residues within 4Å: Chain B: L.16 Chain D: E.21, I.22, S.23, G.24 Ligand excluded by PLIP

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 6 residues within 4Å: Chain A: R.6, T.7, G.8, L.26, Y.27, A.28 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.6, A:L.26, A:A.28 MPD.7: 5 residues within 4Å: Chain B: Y.4, R.6, A.11, E.14, R.32 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.4 Hydrogen bonds: B:R.6, B:E.14, B:E.14, B:R.32 MPD.11: 4 residues within 4Å: Chain C: Y.4, R.6, E.14, R.32 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.6

3 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.6: 4 residues within 4Å: Chain A: A.1 Chain B: C.3, Y.4, C.5 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:C.5 Water bridges: A:A.1 PG0.10: 3 residues within 4Å: Chain C: Y.4, C.5 Chain D: A.1 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:C.5 PG0.14: 5 residues within 4Å: Chain C: A.1, C.31 Chain D: Y.4, C.5, I.22 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:C.5, D:C.5 Water bridges: C:A.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, D. et al., Human Enteric alpha-Defensin 5 Promotes Shigella Infection by Enhancing Bacterial Adhesion and Invasion. Immunity (2018)

Release Date

2016-07-27

Peptides

Defensin-5: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
E

D
F

Defensin-5

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