SMTL ID : 2nlq.5 (10 other biounits)

Human beta-defensin-1 (Mutant Lys31Ala)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: D.1, G.25, T.26 Chain C: D.1, N.4 Ligands: GLY.2 11 PLIP interactions: 4 interactions with chain C, 5 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: C:D.1, C:D.1, C:N.4, A:D.1, A:T.26, A:T.26, A:T.26, G.2, G.2 Water bridges: C:N.4, A:D.1 SO4.4: 6 residues within 4Å: Chain A: D.1, H.2, C.27, Y.28, R.29 Chain B: Y.3 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:H.2, A:Y.28, A:R.29 Water bridges: A:D.1, A:D.1, A:D.1, A:H.2, A:C.27, A:R.29, A:G.30, B:Y.3 Salt bridges: A:R.29 SO4.5: 6 residues within 4Å: Chain A: Y.3 Chain B: D.1, H.2, C.27, Y.28, R.29 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.2, B:Y.28, B:R.29 Water bridges: B:D.1, B:R.29, B:G.30, B:G.30, A:D.1 Salt bridges: B:R.29 SO4.6: 7 residues within 4Å: Chain C: Y.3 Chain D: D.1, H.2, C.27, Y.28, R.29 Ligands: SO4.7 13 PLIP interactions: 11 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:H.2, D:Y.28, D:R.29 Water bridges: D:D.1, D:H.2, D:R.29, D:R.29, D:R.29, D:G.30, D:G.30, C:Y.3, C:Y.3 Salt bridges: D:R.29 SO4.7: 7 residues within 4Å: Chain C: D.1, H.2, C.27, Y.28, R.29 Chain D: Y.3 Ligands: SO4.6 13 PLIP interactions: 2 interactions with chain D, 11 interactions with chain C Water bridges: D:Y.3, D:Y.3, C:D.1, C:H.2, C:C.27, C:R.29, C:R.29, C:R.29, C:G.30 Hydrogen bonds: C:H.2, C:Y.28, C:R.29 Salt bridges: C:R.29

1 x GLY: GLYCINE(Non-covalent)

GLY.2: 8 residues within 4Å: Chain A: D.1, T.26, R.29, G.30 Chain C: D.1, G.25, T.26 Ligands: SO4.1 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain A Hydrogen bonds: C:D.1, C:T.26, A:D.1, A:D.1, A:T.26, A:G.30

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: I.23, T.26, G.30, A.31, A.32, K.33 Chain C: R.29 6 PLIP interactions: 3 interactions with chain A, 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: A:A.32 Water bridges: A:A.31, A:K.33, D:D.1, D:D.1, C:R.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pazgier, M. et al., Studies of the Biological Properties of Human beta-Defensin 1. J.Biol.Chem. (2007)

Release Date

2006-10-31

Peptides

Beta-defensin 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

C
B

D
C

Beta-defensin 1

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