4Z8L

Crystal structure of DCAF1/SIV-MND VPX/MND SAMHD1 NTD ternary complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.199

Literature

Macromolecules
Sequence Display for 4Z8L

Classification: Viral Protein / VPX-BINDING PROTEIN

Total Structure Weight: 130491.18

Macromolecule Entities
Molecule Chains Length Organism Details
Protein VPRBP A, D 349 Homo sapiens EC#: 2.7.11.1 IUBMB
Fragment: UNP residues 1057-1396
Gene Name(s): VPRBP DCAF1 Gene View KIAA0800 RIP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Vpx protein B, E 100 Simian immunodeficiency virus Gene Name(s): vpx
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
SAM domain and HD domain-containing protein C, F 118 Mandrillus sphinx Fragment: N-terminal
Gene Name(s): SAMHD1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZN
Query on ZN

B, E ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.199
  • Space Group: P 31

Unit Cell:

Length (Å) Angle (°)
a = 74.49 α = 90.00
b = 74.49 β = 90.00
c = 178.18 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-04-09
  • Released Date: 2015-06-17
  • Deposition author(s): Koharudin, L.M., Wu, Y., Calero, G., Ahn, J., Gronenborn, A.M.

Revision History

  • Version 1_0: 2015-06-17

    Type: Initial release

  • Version 1_1: 2015-07-29

    Type: Database references

  • Version 1_2: 2017-09-20

    Type: Author supporting evidence, Database references, Derived calculations, Refinement description, Source and taxonomy