SMTL ID : 5hlv.4 (3 other biounits)

Crystal structure of calcium and zinc-bound human S100A8 in space group P212121

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: S.21, K.24, N.26, A.29, Y.31 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.21, A:K.24, A:N.26, A:A.29, H2O.1 CA.2: 5 residues within 4Å: Chain A: D.60, N.62, D.64, A.66, E.71 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.60, A:D.64, A:A.66, A:E.71, H2O.1 CA.6: 5 residues within 4Å: Chain B: S.21, K.24, N.26, A.29, Y.31 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:S.21, B:K.24, B:N.26, B:A.29, H2O.2 CA.7: 5 residues within 4Å: Chain B: D.60, N.62, D.64, A.66, E.71 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.60, B:D.64, B:A.66, B:E.71, H2O.2

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.18, H.28 Chain B: H.84, H.88 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:H.18, A:H.28, B:H.84, B:H.88 ZN.4: 4 residues within 4Å: Chain A: H.84, H.88 Chain B: H.18 Ligands: CL.5 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Metal complexes: A:H.84, A:H.88, B:H.18

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

CL.5: 7 residues within 4Å: Chain A: H.84, H.88 Chain B: Y.17, H.18, F.27, H.28 Ligands: ZN.4 Ligand excluded by PLIP

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.8: 4 residues within 4Å: Chain B: I.61, N.62, N.68, E.71 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:N.62 Hydrogen bonds: B:N.62, B:N.68, B:E.71 Water bridges: B:N.68, B:Q.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, H. et al., Crystal structure of human S100A8 in complex with zinc and calcium. Bmc Struct.Biol. (2016)

Release Date

2016-06-08

Peptides

Protein S100-A8: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

Protein S100-A8

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