5EU0 | pdb_00005eu0

FIC domain of Bep1 from Bartonella rochalimae in complex with BiaA

• PDB DOI: https://doi.org/10.2210/pdb5EU0/pdb

• Classification: TOXIN
• Organism(s): Bartonella rochalimae ATCC BAA-1498
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-11-18 Released: 2017-03-01 
• Deposition Author(s): Goepfert, A.
• Funding Organization(s): Swiss National Science Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.211 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Starting Model: experimental

Literature

Molecular basis for Rho-family GTPase discrimination by a bacterial virulence factor

Dietz, N., Harms, A., Sorg, I., Mas, G., Goepfert, A., Hiller, S., Schirmer, T., Dehio, C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 33.64 kDa 
• Atom Count: 2,444 
• Modeled Residue Count: 268 
• Deposited Residue Count: 291 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bartonella effector protein (Bep) substrate of VirB T4SS	A	224	Bartonella rochalimae ATCC BAA-1498	Mutation(s): 0  Gene Names: BARRO_10061 EC: 2.7.7.108
UniProt
Find proteins for E6YJU0 (Bartonella rochalimae ATCC BAA-1498) Explore E6YJU0  Go to UniProtKB:  E6YJU0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
antitoxin 1	B	67	Bartonella rochalimae ATCC BAA-1498	Mutation(s): 0  Gene Names: BARRO_50056, O99_01280
UniProt
Find proteins for E6YLF5 (Bartonella rochalimae ATCC BAA-1498) Explore E6YLF5  Go to UniProtKB:  E6YLF5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.211 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.13	α = 90
b = 73.13	β = 90
c = 130.15	γ = 90

Software Package:

Software Name	Purpose
BUSTER-TNT	refinement
XSCALE	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
XDS	data reduction
BUSTER	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-03-01 
Deposition Author(s): Goepfert, A.

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Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	3100-138414

Revision History  

• Version 1.0: 2017-03-01
  Type: Initial release
  
• Version 1.1: 2017-03-15
  Changes: Structure summary
• Version 1.2: 2024-01-10
  Changes: Data collection, Database references, Refinement description