3MM0 | pdb_00003mm0

Crystal structure of chimeric avidin

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 
    0.309 (Depositor), 0.317 (DCC) 
  • R-Value Work: 
    0.222 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 
    0.226 (Depositor) 

Starting Model: experimental
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This is version 1.5 of the entry. See complete history. 

Literature

Chimeric avidin shows stability against harsh chemical conditions-biochemical analysis and 3D structure.

Maatta, J.A., Eisenberg-Domovich, Y., Nordlund, H.R., Hayouka, R., Kulomaa, M.S., Livnah, O., Hytonen, V.P.

(2011) Biotechnol Bioeng 108: 481-490

  • DOI: https://doi.org/10.1002/bit.22962
  • Primary Citation Related Structures: 
    3MM0

  • PubMed Abstract: 

    Avidin and its bacterial analog streptavidin have been widely used in applications in life sciences. Recently, we described a highly thermostable engineered avidin, called chimeric avidin, which is a hybrid of avidin and avidin-related protein 4. Here, we report a protocol for pilot-scale production in E. coli and the X-ray structure of chimeric avidin. The ligand-binding properties of chimeric avidin were explored with isothermal titration calorimetry. We found chimeric avidin to be more stable against various harsh organic solvents at elevated temperatures compared to avidin and streptavidin. The properties of chimeric avidin make it a potential tool for new applications in biotechnology.

    • Organizational Affiliation: 
    • Institute of Medical Technology, University of Tampere and Tampere University Hospital, Tampere, Finland.

Macromolecule Content 

  • Total Structure Weight: 172.8 kDa 
  • Atom Count: 11,014 
  • Modeled Residue Count: 1,404 
  • Deposited Residue Count: 1,548 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:
|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Avidin, Avidin-related protein 4/5129Gallus gallusMutation(s): 1 
Gene Names: AVR4, AVR5, AVD
UniProt
Find proteins for P02701 (Gallus gallus)
Explore P02701 
Go to UniProtKB:  P02701
Find proteins for P56734 (Gallus gallus)
Explore P56734 
Go to UniProtKB:  P56734
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP56734P02701
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free:  0.309 (Depositor), 0.317 (DCC) 
  • R-Value Work:  0.222 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 0.226 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 158.657α = 90
b = 124.791β = 114.45
c = 88.895γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
AMoREphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-10-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-07-26
    Changes: Refinement description, Source and taxonomy
  • Version 1.3: 2021-10-06
    Changes: Database references
  • Version 1.4: 2023-09-06
    Changes: Data collection, Refinement description
  • Version 1.5: 2024-10-16
    Changes: Structure summary