6BWY

DNA substrate selection by APOBEC3G


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.234 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Insights into DNA substrate selection by APOBEC3G from structural, biochemical, and functional studies.

Ziegler, S.J.Liu, C.Landau, M.Buzovetsky, O.Desimmie, B.A.Zhao, Q.Sasaki, T.Burdick, R.C.Pathak, V.K.Anderson, K.S.Xiong, Y.

(2018) PLoS ONE 13: e0195048-e0195048


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protection of telomeres protein 1, DNA dC->dU-editing enzyme APOBEC-3G fusion
A, B, E, G
361Homo sapiensSchizosaccharomyces pombe (strain 972 / ATCC 24843)
This entity is chimeric
Mutation(s): 5 
Gene Names: APOBEC3G, pot1
EC: 3.5.4.-
Find proteins for Q9HC16 (Homo sapiens)
Go to Gene View: APOBEC3G
Go to UniProtKB:  Q9HC16
Find proteins for O13988 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
Go to UniProtKB:  O13988
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (30-MER)I,C,D,F30synthetic construct
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, I
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B, E, G
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.234 
  • Space Group: P 43
Unit Cell:
Length (Å)Angle (°)
a = 79.072α = 90.00
b = 79.072β = 90.00
c = 266.411γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
REFMACrefinement
HKL-2000data reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-04-18
    Type: Initial release