5VFZ | pdb_00005vfz

Integrase from mycobacterium phage Brujita

• PDB DOI: https://doi.org/10.2210/pdb5VFZ/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Brujitavirus brujita
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-04-10 Released: 2018-04-18 
• Deposition Author(s): VanDemark, A.P., Lunt, B., Hatfull, G.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.182 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.164 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.164 (Depositor) 

Literature

Integrase from mycobacterium phage Brujita

Lunt, B., VanDemark, A.P., Hatfull, G.F.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 36.34 kDa 
• Atom Count: 2,490 
• Modeled Residue Count: 287 
• Deposited Residue Count: 318 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Gp33	A	318	Brujitavirus brujita	Mutation(s): 0  Gene Names: 33, BRUJITA_33
UniProt
Find proteins for B5U3A1 (Mycobacterium phage Brujita) Explore B5U3A1  Go to UniProtKB:  B5U3A1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT	D [auth A], E [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
NA	C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.182 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.164 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.164 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 133.213	α = 90
b = 50.05	β = 115.34
c = 60.679	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data scaling
HKL-2000	data processing
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-04-18 
Deposition Author(s): VanDemark, A.P., Lunt, B., Hatfull, G.F.

Revision History  

• Version 1.0: 2018-04-18
  Type: Initial release
  
• Version 1.1: 2019-12-11
  Changes: Author supporting evidence, Database references
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references