7KP2

High Resolution Crystal Structure of Putative Pterin Binding Protein (PruR) from Vibrio cholerae O1 biovar El Tor str. N16961 in Complex with Neopterin

• PDB DOI: https://doi.org/10.2210/pdb7KP2/pdb

• Classification: PTERIN-BINDING PROTEIN
• Organism(s): Vibrio cholerae O1 biovar El Tor str. N16961
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-11-10 Released: 2021-11-17 
• Deposition Author(s): Minasov, G., Shuvalova, L., Kiryukhina, O., Pshenychnyi, S., Dubrovska, I., Endres, M., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.03 Å
• R-Value Free: 0.147 
• R-Value Work: 0.128 
• R-Value Observed: 0.129 

Literature

High Resolution Crystal Structure of Putative Pterin Binding Protein (PruR) from Vibrio cholerae O1 biovar El Tor str. N16961 in Complex with Neopterin.

Minasov, G., Shuvalova, L., Kiryukhina, O., Pshenychnyi, S., Dubrovska, I., Endres, M., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15.94 kDa 
• Atom Count: 1,599 
• Modelled Residue Count: 138 
• Deposited Residue Count: 138 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative Pterin Binding Protein	A	138	Vibrio cholerae O1 biovar El Tor str. N16961	Mutation(s): 0  Gene Names: VC_1933
UniProt
Find proteins for Q9KQR5 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)) Explore Q9KQR5  Go to UniProtKB:  Q9KQR5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NEU (Subject of Investigation/LOI)	B [auth A]	L-NEOPTERIN C9 H11 N5 O4 BMQYVXCPAOLZOK-XINAWCOVSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.03 Å
• R-Value Free: 0.147 
• R-Value Work: 0.128 
• R-Value Observed: 0.129 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/m37kp2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.488	α = 90
b = 54.616	β = 91.5
c = 33.448	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-11-17 
Deposition Author(s): Minasov, G., Shuvalova, L., Kiryukhina, O., Pshenychnyi, S., Dubrovska, I., Endres, M., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2021-11-17
  Type: Initial release
  
• Version 2.0: 2022-08-17
  Type: Coordinate replacement
  Reason: Ligand geometry
  Changes: Atomic model, Author supporting evidence, Data collection, Derived calculations, Non-polymer description, Other, Refinement description, Source and taxonomy, Structure summary
• Version 2.1: 2024-10-16
  Changes: Data collection, Structure summary