2UZ2

Crystal structure of Xenavidin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural and Functional Characteristics of Xenavidin, the First Frog Avidin from Xenopus Tropicalis.

Maatta, J.A.E.Helppolainen, S.H.Hytonen, V.P.Johnson, M.S.Kulomaa, M.S.Airenne, T.T.Nordlund, H.R.

(2009) Bmc Struct.Biol. 9: 63

  • DOI: 10.1186/1472-6807-9-63
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Avidins are proteins with extraordinarily high ligand-binding affinity, a property which is used in a wide array of life science applications. Even though useful for biotechnology and nanotechnology, the biological function of avidins is not fully un ...

    Avidins are proteins with extraordinarily high ligand-binding affinity, a property which is used in a wide array of life science applications. Even though useful for biotechnology and nanotechnology, the biological function of avidins is not fully understood. Here we structurally and functionally characterise a novel avidin named xenavidin, which is to our knowledge the first reported avidin from a frog.


    Organizational Affiliation

    Institute of Medical Technology, Biokatu 6, FI-33014 University of Tampere and Tampere University Hospital, Tampere, Finland. juha.maatta@uta.fi




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
XENAVIDIN
A, D
130Xenopus tropicalisMutation(s): 0 
Gene Names: avd
Find proteins for A7YYL1 (Xenopus tropicalis)
Go to UniProtKB:  A7YYL1
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
BTN
Query on BTN

Download SDF File 
Download CCD File 
D
BIOTIN
C10 H16 N2 O3 S
YBJHBAHKTGYVGT-ZKWXMUAHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.181 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 110.817α = 90.00
b = 110.817β = 90.00
c = 142.339γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
REFMACrefinement
ARP/wARPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-06-03
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Refinement description, Version format compliance
  • Version 1.2: 2017-06-28
    Type: Refinement description