7KOM

High Resolution Crystal Structure of Putative Pterin Binding Protein PruR (VV2_1280) from Vibrio vulnificus CMCP6

• PDB DOI: https://doi.org/10.2210/pdb7KOM/pdb

• Classification: Pterin binding protein
• Organism(s): Vibrio vulnificus CMCP6
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-11-09 Released: 2021-11-17 
• Deposition Author(s): Minasov, G., Shuvalova, L., Kiryukhina, O., Dubrovska, I., Endres, M., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.99 Å
• R-Value Free: 0.141 
• R-Value Work: 0.119 
• R-Value Observed: 0.120 

Literature

High Resolution Crystal Structure of Putative Pterin Binding Protein PruR (VV2_1280) from Vibrio vulnificus CMCP6.

Minasov, G., Shuvalova, L., Kiryukhina, O., 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: 16.33 kDa 
• Atom Count: 1,646 
• Modelled Residue Count: 134 
• Deposited Residue Count: 138 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Oxidored_molyb domain-containing protein	A	138	Vibrio vulnificus CMCP6	Mutation(s): 0  Gene Names: VV2_1280
UniProt
Find proteins for A0A3Q0L063 (Vibrio vulnificus (strain CMCP6)) Explore A0A3Q0L063  Go to UniProtKB:  A0A3Q0L063

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMT	B [auth A], C [auth A]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N
NA	D [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-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: 0.99 Å
• R-Value Free: 0.141 
• R-Value Work: 0.119 
• R-Value Observed: 0.120 
• Space Group: I 2 2 2
• Diffraction Data: https://doi.org/10.18430/m37kom

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.046	α = 90
b = 71.087	β = 90
c = 106.359	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 

Deposition Data

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

Revision History  

• Version 1.0: 2021-11-17
  Type: Initial release
  
• Version 1.1: 2024-10-23
  Changes: Data collection, Structure summary