SMTL ID : 5sxg.2 (1 other biounit)

Crystal Structure of the Cancer Genomic DNA Mutator APOBEC3B

Coordinates

PDB Format

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

4 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:R.27, A:T.29, A:N.55, A:E.62, A:C.91 PDO.3: 2 residues within 4Å: Chain A: E.149, D.153 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.149 PDO.4: 7 residues within 4Å: Chain A: P.21, I.119, D.121, Y.126, L.176, R.179, I.183 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.126, A:R.179 PDO.5: 8 residues within 4Å: Chain A: V.23, L.24, R.25, R.27, W.88, Y.120, D.121, Y.122 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.88 Hydrogen bonds: A:R.25, A:R.25

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
B

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

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