4IKE

Crystal Structure of a partly open ATP-lid of liganded Adenylate kinase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

The ATP-Lid Opened Adenylate Kinase with Fully Occupied Substrates

Cho, Y.-J.Kern, D.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Adenylate kinase
A, B
206Aquifex aeolicus (strain VF5)Mutation(s): 0 
Gene Names: adk
EC: 2.7.4.3
Find proteins for O66490 (Aquifex aeolicus (strain VF5))
Go to UniProtKB:  O66490
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
A, B
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
AMP
Query on AMP

Download SDF File 
Download CCD File 
A, B
ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.161 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 56.370α = 90.00
b = 61.570β = 94.33
c = 58.890γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
PHENIXrefinement
SCALAdata scaling
iMOSFLMdata reduction
AutoBuildphasing
AutoBuildmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-12-26 
  • Released Date: 2014-07-02 
  • Deposition Author(s): Cho, Y.-J., Kern, D.

Revision History 

  • Version 1.0: 2014-07-02
    Type: Initial release