4C2U

Crystal structure of Deinococcus radiodurans UvrD in complex with DNA, Form 1

Structural Biology Knowledgebase: 4C2U SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.267
  • R-Value Work: 0.211

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4C2U

Classification: HYDROLASE / DNA

Total Structure Weight: 165035.47


Macromolecule Entities
Molecule Chains Length Organism Details
DNA HELICASE II A, D 665 Deinococcus radiodurans EC#: 3.6.4.12 IUBMB
Fragment: C-TERMINAL TRUNCATION, RESIDUES 1-665
Gene Name(s): DR_1775
Macromolecule Entities
Molecule Chains Length Organism Details
REV25 X 25 Synthetic construct
FOR25 Y 25 Synthetic construct

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ANP
Query on ANP

A, D PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NO3
Query on NO3

A, D NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A, D SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.267
  • R-Value Work: 0.211
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 67.57 α = 90.00
b = 67.45 β = 90.00
c = 386.04 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-08-20
  • Released Date: 2013-10-30
  • Deposition author(s): Stelter, M., Acajjaoui, S., McSweeney, S., Timmins, J.

Revision History

No revisions since initial release