SMTL ID : 4xjk.2 (2 other biounits)

Crystal structure of Mn(II) Ca(II) Na(I) bound calprotectin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

hetero-2-2-mer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.59, N.61, D.63, A.65, E.70 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.59, A:D.63, A:A.65, A:E.70, H2O.1 CA.4: 5 residues within 4Å: Chain B: D.67, N.69, D.71, Q.73, E.78 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.67, B:D.71, B:Q.73, B:E.78, H2O.4 CA.6: 5 residues within 4Å: Chain C: D.59, N.61, D.63, A.65, E.70 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.59, C:D.63, C:A.65, C:E.70, H2O.7 CA.9: 5 residues within 4Å: Chain D: D.67, N.69, D.71, Q.73, E.78 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.67, D:D.71, D:Q.73, D:E.78, H2O.10

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 5 residues within 4Å: Chain A: S.20, K.23, N.25, A.28, Y.30 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.23, A:A.28, A:A.28 NA.5: 6 residues within 4Å: Chain B: S.23, L.26, G.27, H.28, T.31, E.36 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.23 NA.7: 5 residues within 4Å: Chain C: S.20, K.23, N.25, A.28, Y.30 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.23, C:A.28, C:A.28 Water bridges: C:I.22 NA.10: 5 residues within 4Å: Chain D: S.23, L.26, H.28, T.31, E.36 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.36

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 6 residues within 4Å: Chain A: H.17, H.27 Chain B: H.91, H.95, H.103, H.105 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Metal complexes: B:H.91, B:H.95, B:H.103, B:H.105, A:H.17, A:H.27 MN.8: 6 residues within 4Å: Chain C: H.17, H.27 Chain D: H.91, H.95, H.103, H.105 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain C Metal complexes: D:H.91, D:H.95, D:H.103, D:H.105, C:H.17, C:H.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gagnon, D.M. et al., Manganese Binding Properties of Human Calprotectin under Conditions of High and Low Calcium: X-ray Crystallographic and Advanced Electron Paramagnetic Resonance Spectroscopic Analysis. J.Am.Chem.Soc. (2015)

Release Date

2015-04-15

Peptides

Protein S100-A8: AC
Protein S100-A9: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
G

B
F

D
H

Protein S100-A8

Protein S100-A9

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