3NIR

Crystal structure of small protein crambin at 0.48 A resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.48 Å
  • R-Value Work: 0.127 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of small protein crambin at 0.48 A resolution

Schmidt, A.Teeter, M.Weckert, E.Lamzin, V.S.

(2011) Acta Crystallogr.,Sect.F 67: 424-429

  • DOI: 10.1107/S1744309110052607

  • PubMed Abstract: 
  • With the development of highly brilliant and extremely intense synchrotron X-ray sources, extreme high-resolution limits for biological samples are now becoming attainable. Here, a study is presented that sets the record in crystallographic resolutio ...

    With the development of highly brilliant and extremely intense synchrotron X-ray sources, extreme high-resolution limits for biological samples are now becoming attainable. Here, a study is presented that sets the record in crystallographic resolution for a biological macromolecule. The structure of the small protein crambin was determined to 0.48 Å resolution on the PETRA II ring before its conversion to a dedicated synchrotron-radiation source. The results reveal a wealth of details in electron density and demonstrate the possibilities that are potentially offered by a high-energy source. The question now arises as to what the true limits are in terms of what can be seen at such high resolution. From what can be extrapolated from the results using crystals of crambin, this limit would be at approximately 0.40 Å, which approaches that for smaller compounds.


    Related Citations: 
    • Accurate protein crystallography at ultra-high resolution: valence electron distribution in crambin.
      Jelsch, C.,Teeter, M.M.,Lamzin, V.S.,Pichon-Pesme, V.,Blessing, R.H.,Lecomte, C.
      (2000) Proc.Natl.Acad.Sci.USA 97: 3171


    Organizational Affiliation

    EMBL Hamburg, c/o DESY, Notkestrasse 85, D-22607 Hamburg, Germany. andrea@embl-hamburg.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Crambin
A
46Crambe hispanica subsp. abyssinicaGene Names: THI2
Find proteins for P01542 (Crambe hispanica subsp. abyssinica)
Go to UniProtKB:  P01542
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EOH
Query on EOH

Download SDF File 
Download CCD File 
A
ETHANOL
C2 H6 O
LFQSCWFLJHTTHZ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.48 Å
  • R-Value Work: 0.127 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 22.329α = 90.00
b = 18.471β = 90.55
c = 40.769γ = 90.00
Software Package:
Software NamePurpose
MAR345data collection
SCALAdata scaling
MOPROrefinement
SCALEPACKdata scaling
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-05-18
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2016-03-02
    Type: Database references
  • Version 1.3: 2017-11-08
    Type: Refinement description