5Z98

Crystal Structure of the Primate APOBEC3H Dimer mediated by RNA Duplex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.320 
  • R-Value Work: 0.251 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural basis of chimpanzee APOBEC3H dimerization stabilized by double-stranded RNA.

Matsuoka, T.Nagae, T.Ode, H.Awazu, H.Kurosawa, T.Hamano, A.Matsuoka, K.Hachiya, A.Imahashi, M.Yokomaku, Y.Watanabe, N.Iwatani, Y.

(2018) Nucleic Acids Res. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Apolipoprotein B mRNA editing enzyme catalytic polypeptide-like protein 3H
A, B
185Pan troglodytesMutation(s): 0 
Gene Names: APOBEC3H
Find proteins for B7T0U6 (Pan troglodytes)
Go to Gene View: APOBEC3H
Go to UniProtKB:  B7T0U6
Entity ID: 2
MoleculeChainsLengthOrganism
RNA (5'-R(P*CP*UP*GP*CP*CP*GP*GP*GP*UP*A)-3')C10unidentified
Entity ID: 3
MoleculeChainsLengthOrganism
RNA (5'-R(*AP*UP*AP*CP*CP*CP*GP*GP*CP*A)-3')D10unidentified
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.320 
  • R-Value Work: 0.251 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 38.341α = 90.00
b = 86.970β = 102.63
c = 77.363γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
Cootmodel building
XDSdata reduction
PHENIXrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of ScienceJapanJP15H04740

Revision History 

  • Version 1.0: 2018-08-15
    Type: Initial release