SMTL ID : 5dkq.1

Crystal Structure of Calcium-loaded S100B bound to SBi4214

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: S.19, E.22, D.24, K.27, E.32 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.19, A:E.22, A:D.24, A:K.27, H2O.2 CA.2: 5 residues within 4Å: Chain A: D.62, D.64, D.66, E.68, E.73 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.62, A:D.64, A:E.68, A:E.73, A:E.73 CA.4: 5 residues within 4Å: Chain B: S.19, E.22, D.24, K.27, E.32 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:S.19, B:E.22, B:D.24, B:K.27, H2O.7 CA.5: 5 residues within 4Å: Chain B: D.62, D.64, D.66, E.68, E.73 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.62, B:D.64, B:E.68, B:E.73, B:E.73

2 x 5D0: 2,2'-[pentane-1,5-diylbis(oxybenzene-4,1-diyl)]di-1,4,5,6-tetrahydropyrimidine(Non-covalent)

5D0.3: 8 residues within 4Å: Chain A: H.43, F.44, C.85, H.86, F.88, F.89 Chain B: I.12, H.16 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.44, A:F.88, A:F.88, A:F.89, B:I.12 Hydrogen bonds: A:H.86 pi-Stacking: A:F.89 5D0.6: 8 residues within 4Å: Chain A: I.12, H.16 Chain B: H.43, F.44, C.85, H.86, F.88, F.89 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:I.12, B:F.44, B:F.88, B:F.88, B:F.89 Hydrogen bonds: B:H.86 pi-Stacking: B:F.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cavalier, M.C. et al., Small Molecule Inhibitors of Ca(2+)-S100B Reveal Two Protein Conformations. J.Med.Chem. (2016)

Release Date

2016-01-20

Peptides

Protein S100-B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Protein S100-B

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