5YXC

Crystal structure of Zinc binding protein ZinT in complex with citrate from E. coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.763 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.188 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of E. coli ZinT with one zinc-binding mode and complexed with citrate

Chen, J.Wang, L.Shang, F.Dong, Y.Ha, N.C.Nam, K.H.Quan, C.Xu, Y.

(2018) Biochem. Biophys. Res. Commun. 500: 139-144


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Metal-binding protein ZinT
A, B
216Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: zinT (yodA)
Find proteins for P76344 (Escherichia coli (strain K12))
Go to UniProtKB:  P76344
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CIT
Query on CIT

Download SDF File 
Download CCD File 
A, B
CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.763 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.188 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 41.040α = 90.00
b = 65.866β = 91.35
c = 73.536γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
HKL-2000data scaling
PHENIXphasing
PHENIXrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31200556
National Natural Science Foundation of ChinaChina21272031
Program for Liaoning Excellent Talents in UniversityChinaLJQ2015030
Fundamental Research Funds for the Central UniversitiesChinaDC201502020203

Revision History 

  • Version 1.0: 2017-12-20
    Type: Initial release
  • Version 1.1: 2018-12-12
    Type: Data collection, Database references