6CZF

The structure of E. coli PurF in complex with ppGpp-Mg


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.949 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Affinity-based capture and identification of protein effectors of the growth regulator ppGpp.

Wang, B.Dai, P.Ding, D.Del Rosario, A.Grant, R.A.Pentelute, B.L.Laub, M.T.

(2019) Nat. Chem. Biol. 15: 141-150


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Amidophosphoribosyltransferase
A, B, C, D
498Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: purF
EC: 2.4.2.14
Find proteins for P0AG16 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AG16
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A, D
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
G4P
Query on G4P

Download SDF File 
Download CCD File 
A, D
GUANOSINE-5',3'-TETRAPHOSPHATE
C10 H17 N5 O17 P4
BUFLLCUFNHESEH-UUOKFMHZSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.949 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.216 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 107.293α = 90.00
b = 115.339β = 90.00
c = 156.066γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHASERphasing
HKL-2000data scaling
PDB_EXTRACTdata extraction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR01GM082899

Revision History 

  • Version 1.0: 2018-10-10
    Type: Initial release
  • Version 1.1: 2019-01-09
    Type: Data collection, Database references, Structure summary
  • Version 1.2: 2019-01-30
    Type: Data collection, Database references