1CFR | pdb_00001cfr

CRYSTAL STRUCTURE OF CITROBACTER FREUNDII RESTRICTION ENDONUCLEASE CFR10I AT 2.15 ANGSTROMS RESOLUTION.

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Work: 
    0.196 (Depositor) 
  • R-Value Observed: 
    0.196 (Depositor) 

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This is version 1.3 of the entry. See complete history. 

Literature

Crystal structure of Citrobacter freundii restriction endonuclease Cfr10I at 2.15 A resolution.

Bozic, D., Grazulis, S., Siksnys, V., Huber, R.

(1996) J Mol Biology 255: 176-186

  • DOI: https://doi.org/10.1006/jmbi.1996.0015
  • Primary Citation Related Structures: 
    1CFR

  • PubMed Abstract: 

    The X-ray crystal structure of Citrobacter freundii restriction endonuclease Cfr10I has been determined at a resolution of 2.15 A by multiple isomorphous replacement methods and refined to an R-factor of 19.64%. The structure of Cfr10I represents the first structure of a restriction endonuclease recognizing a degenerated nucleotide sequence. Structural comparison of Cfr10I with previously solved structures of other restriction enzymes suggests that recognition of specific sequence occurs through contacts in the major and the minor grooves of DNA. The arrangement of the putative active site residues shows some striking differences from previously described restriction endonucleases and supports a two-metal-ion mechanism of catalysis.

    • Organizational Affiliation: 
    • Max-Planck-Institut für Biochemie, Planegg-Martinsried Germany.

Macromolecule Content 

  • Total Structure Weight: 32.05 kDa 
  • Atom Count: 2,340 
  • Modeled Residue Count: 283 
  • Deposited Residue Count: 285 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
RESTRICTION ENDONUCLEASE285Citrobacter freundiiMutation(s): 0 
EC: 3.1.21.4
UniProt
Find proteins for P56200 (Citrobacter freundii)
Explore P56200 
Go to UniProtKB:  P56200
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP56200
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Work:  0.196 (Depositor) 
  • R-Value Observed: 0.196 (Depositor) 
Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.5α = 90
b = 81.3β = 90
c = 119.7γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
MOSFLMdata reduction
CCP4data scaling
ROTAVATAdata scaling
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-01-27
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2024-02-07
    Changes: Data collection, Database references, Other, Refinement description