SMTL ID : 5mra.1 (1 other biounit)

human SCBD (sorcin calcium binding domain) in complex with doxorubicin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.74 Å

Oligo State

homo-dimer

Ligands

5 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: F.81, D.82, D.84, T.88, E.93 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.84 MG.2: 6 residues within 4Å: Chain A: Q.17, D.52, D.54, S.56, T.58, E.63 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.52, A:D.54, A:T.58 MG.3: 3 residues within 4Å: Chain A: D.19, D.21, E.22 No protein-ligand interaction detected (PLIP) MG.4: 5 residues within 4Å: Chain B: D.52, D.54, S.56, T.58, E.63 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:S.56, B:T.58 MG.5: 4 residues within 4Å: Chain B: D.82, T.88, V.89, E.93 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.82

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.6: 2 residues within 4Å: Chain B: M.1, Y.5 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:Y.5

1 x DM2: DOXORUBICIN(Non-covalent)

DM2.7: 7 residues within 4Å: Chain A: Y.157 Chain B: F.103, T.139, R.143, D.146, Q.150, G.151 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:R.143 Hydrogen bonds: B:R.143, B:G.151 pi-Stacking: A:Y.157, A:Y.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Genovese, I. et al., Binding of doxorubicin to Sorcin impairs cell death and increases drug resistance in cancer cells. Cell Death Dis (2017)

Release Date

2017-11-29

Peptides

Sorcin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Sorcin

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