5IFU

Crystal Structure of Prolyl-tRNA synthetase (ProRS, Proline--tRNA ligase) from Plasmodium falciparum in complex with Glyburide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.185

Literature

Macromolecules
Sequence Display for 5IFU

Classification: LIGASE

Total Structure Weight: 119764.94

Macromolecule Entities
Molecule Chains Length Organism Details
Proline--tRNA ligase A, B 506 Plasmodium falciparum EC#: 6.1.1.15 IUBMB
Fragment: UNP residues 249-746
Gene Name(s): proRS PFL0670c
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GBM
Query on GBM

A, B 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)- 2-methoxybenzamide
Glyburide, (Synonym)
C23 H28 Cl N3 O5 S
ZNNLBTZKUZBEKO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FMT
Query on FMT

A, B FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.185
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 138.31 α = 90.00
b = 138.31 β = 90.00
c = 156.66 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-02-26
  • Released Date: 2016-11-16
  • Deposition author(s): Dranow, D.M., Hewitt, S.N., Abendroth, J., Structural Genomics Consortium (SGC)

Revision History

  • Version 1_0: 2016-11-16

    Type: Initial release

  • Version 1_1: 2017-01-25

    Type: Database references