6T21

N-terminal domain of EcoKMcrA restriction endonuclease (NEco) in complex with T5mCGA target sequence


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.159 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of the EcoKMcrA N-terminal domain (NEco): recognition of modified cytosine bases without flipping

Slyvka, A.Zagorskaite, E.Czapinska, H.Sasnauskas, G.Bochtler, M.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
5-methylcytosine-specific restriction enzyme A
A, B
152Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: mcrA (rglA)
EC: 3.1.21.-
Find proteins for P24200 (Escherichia coli (strain K12))
Go to UniProtKB:  P24200
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*TP*CP*AP*TP*(5CM)P*GP*AP*TP*TP*C)-3')C,E10synthetic construct
Entity ID: 3
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*AP*AP*TP*(5CM)P*GP*AP*TP*GP*A)-3')D,F10synthetic construct
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
5CM
Query on 5CM
C, D, E, F
DNA LINKINGC10 H16 N3 O7 PDC
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.159 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 112.882α = 90.00
b = 112.882β = 90.00
c = 155.751γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
REFMACrefinement
MOLREPphasing
XDSdata scaling
PDB_EXTRACTdata extraction
ARP/wARPmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-10-23
    Type: Initial release