5KWV

Crystal Structure of a Pantoate-beta-alanine Ligase from Neisseria gonorrhoeae with bound AMPPNP

• PDB DOI: https://doi.org/10.2210/pdb5KWV/pdb

• Classification: LIGASE
• Organism(s): Neisseria gonorrhoeae NCCP11945
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2016-07-19 Released: 2016-07-27 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.219 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 

Literature

Crystal Structure of a Pantoate-beta-alanine Ligase from Neisseria gonorrhoeae with bound AMPPNP

Dranow, D.M., Mayclin, S.J., Lorimer, D.D., Edwards, T.E.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 65.11 kDa 
• Atom Count: 4,283 
• Modelled Residue Count: 540 
• Deposited Residue Count: 572 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pantothenate synthetase	A, B	286	Neisseria gonorrhoeae NCCP11945	Mutation(s): 1  Gene Names: panC, NGK_0607 EC: 6.3.2.1
UniProt
Find proteins for B4RKE7 (Neisseria gonorrhoeae (strain NCCP11945)) Explore B4RKE7  Go to UniProtKB:  B4RKE7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP	C [auth A], D [auth B]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.219 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 
• Space Group: P 4₁ 2₁ 2
• Diffraction Data: https://doi.org/10.18430/M35KWV

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 137.65	α = 90
b = 137.65	β = 90
c = 73.02	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-07-27 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2016-07-27
  Type: Initial release
  
• Version 1.1: 2023-10-04
  Changes: Data collection, Database references, Derived calculations, Refinement description