1D02

CRYSTAL STRUCTURE OF MUNI RESTRICTION ENDONUCLEASE IN COMPLEX WITH COGNATE DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of MunI restriction endonuclease in complex with cognate DNA at 1.7 A resolution.

Deibert, M.Grazulis, S.Janulaitis, A.Siksnys, V.Huber, R.

(1999) EMBO J. 18: 5805-5816

  • DOI: 10.1093/emboj/18.21.5805

  • PubMed Abstract: 
  • The MunI restriction enzyme recognizes the palindromic hexanucleotide sequence C/AATTG (the '/' indicates the cleavage site). The crystal structure of its active site mutant D83A bound to cognate DNA has been determined at 1.7 A resolution. Base-spec ...

    The MunI restriction enzyme recognizes the palindromic hexanucleotide sequence C/AATTG (the '/' indicates the cleavage site). The crystal structure of its active site mutant D83A bound to cognate DNA has been determined at 1.7 A resolution. Base-specific contacts between MunI and DNA occur exclusively in the major groove. While DNA-binding sites of most other restriction enzymes are comprised of discontinuous sequence segments, MunI combines all residues involved in the base-specific contacts within one short stretch (residues R115-R121) located at the N-terminal region of the 3(10)4 helix. The outer CG base pair of the recognition sequence is recognized solely by R115 through hydrogen bonds made by backbone and side chain atoms to both bases. The mechanism of recognition of the central AATT nucleotides by MunI is similar to that of EcoRI, which recognizes the G/AATTC sequence. The local conformation of AATT deviates from the typical B-DNA form and is remarkably similar to EcoRI-DNA. It appears to be essential for specific hydrogen bonding and recognition by MunI and EcoRI.


    Organizational Affiliation

    Max-Planck-Institut für Biochemie, D-82152 Planegg-Martinsried, Germany. deibert@biochem.mpg.de




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TYPE II RESTRICTION ENZYME MUNI
A, B
202Mycoplasma spGene Names: munIR
EC: 3.1.21.4
Find proteins for P43642 (Mycoplasma sp)
Go to UniProtKB:  P43642
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*CP*CP*AP*AP*TP*TP*GP*GP*C)-3')C,D10N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.180 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 58.400α = 90.00
b = 72.470β = 90.00
c = 121.670γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
CNSrefinement
MLPHAREphasing
CCP4data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-03-08
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance