6L6G

Crystal structure of SeMet_Lpg0189


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of a hypothetical T2SS effector Lpg0189 from Legionella pneumophila reveals a novel protein fold.

Chen, X.Liu, S.Jiang, S.Zhang, X.Zhang, N.Ma, J.Ge, H.

(2019) Biochem.Biophys.Res.Commun. --: --

  • DOI: 10.1016/j.bbrc.2019.10.195
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Lpg0189 is a type II secretion system-dependent extracellular protein with unknown function from Legionella pneumophila. Herein, we determined the crystal structure of Lpg0189 at 1.98 Å resolution by using single-wavelength anomalous diffraction (SAD ...

    Lpg0189 is a type II secretion system-dependent extracellular protein with unknown function from Legionella pneumophila. Herein, we determined the crystal structure of Lpg0189 at 1.98 Å resolution by using single-wavelength anomalous diffraction (SAD). Lpg0189 folds into a novel chair-shaped architecture, with two sheets roughly perpendicular to each other. Bioinformatics analysis suggests Lpg0189 and its homologues are unique to Legionellales and evolved divergently. The interlinking structural and bioinformatics studies provide a better understanding of this hypothetical protein.


    Organizational Affiliation

    Institute of Physical Science and Information Technology, Anhui University, Hefei, Anhui, 230601, China; Life Sciences, Anhui University, Hefei, Anhui, 230601, China. Electronic address: ghh_ahu@foxmail.com.,Institute of Physical Science and Information Technology, Anhui University, Hefei, Anhui, 230601, China; Life Sciences, Anhui University, Hefei, Anhui, 230601, China. Electronic address: jmma@ahu.edu.cn.,Institute of Physical Science and Information Technology, Anhui University, Hefei, Anhui, 230601, China.,Life Sciences, Anhui University, Hefei, Anhui, 230601, China.,Institute of Physical Science and Information Technology, Anhui University, Hefei, Anhui, 230601, China; Life Sciences, Anhui University, Hefei, Anhui, 230601, China. Electronic address: nancy_zhangnn@foxmail.com.,Institute of Physical Science and Information Technology, Anhui University, Hefei, Anhui, 230601, China; School of Chemistry and Chemical Engineering, Anhui University, Hefei, Anhui, 230601, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Uncharacterized protein Lpg0189
A, B
269Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)Mutation(s): 0 
Find proteins for Q5ZZ22 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
Go to UniProtKB:  Q5ZZ22
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.175 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 121.685α = 90.00
b = 121.685β = 90.00
c = 104.395γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-3000data reduction
AutoSolphasing
HKL-3000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2019-10-29 
  • Released Date: 2019-11-27 
  • Deposition Author(s): Ge, H., Chen, X.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31970103

Revision History 

  • Version 1.0: 2019-11-27
    Type: Initial release