3VHT

Crystal structure of GFP-Wrnip1 UBZ domain fusion protein in complex with ubiquitin

Structural Biology Knowledgebase: 3VHT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3VHT

Classification: FLUORESCENT PROTEIN / PROTEIN BINDING

Total Structure Weight: 65492.83

Macromolecule Entities
Molecule Chains Length Organism Details
Green fluorescent protein A 235 Aequorea victoria Fragment: GFP domain
Gene Name(s): GFP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Green fluorescent protein, ATPase WRNIP1 B 273 Aequorea victoria Homo sapiens EC#: 3.6.1.3 IUBMB
Fragment: GFP-Wrnip1 UBZ domain
Details: THE FUSION PROTEIN OF YEAST ENHANCED GREEN FLUORESCENT PROTEIN, LINKER (GLY-SER) AND HUMAN WRNIP1 UBZ
Gene Name(s): WRNIP1 Gene View WHIP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Ubiquitin C 76 Mus musculus Gene Name(s): Uba52
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 ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CR2
Query on CR2
A, B L-PEPTIDE LINKING C13 H13 N3 O4 GLY , TYR , GLY

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.191
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 88.95 α = 90.00
b = 143.69 β = 90.00
c = 106.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-09-06
  • Released Date: 2012-10-10
  • Deposition author(s): Suzuki, N., Wakatsuki, S., Kawasaki, M.

Revision History

  • 2016-06-01
    Type: Citation | Details: Citation update