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

Crystal Structure of the Cancer Genomic DNA Mutator APOBEC3B

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.60, E.62, C.91, W.94, C.96 Ligands: PDO.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.60, A:C.91, A:C.96, H2O.1

2 x PDO: 1,3-PROPANDIOL(Non-covalent)

PDO.2: 12 residues within 4Å: Chain A: R.27, Q.28, T.29, N.55, H.60, E.62, W.88, S.89, P.90, C.91, Y.120 Ligands: ZN.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.120 Hydrogen bonds: A:Q.28, A:T.29, A:N.55, A:S.89, A:C.91 PDO.4: 7 residues within 4Å: Chain A: R.26, R.27, Q.28, N.55, E.56, S.57, G.58 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.55, A:G.58 Water bridges: A:R.27

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 7 residues within 4Å: Chain A: T.83, F.85, R.113, K.115, D.146, E.147, Y.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.115, A:E.147 Water bridges: A:R.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, K. et al., Conformational Switch Regulates the DNA Cytosine Deaminase Activity of Human APOBEC3B. Sci Rep (2017)

Release Date

2017-12-27

Peptides

DNA dC->dU-editing enzyme APOBEC-3B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA dC->dU-editing enzyme APOBEC-3B

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