6VPE | pdb_00006vpe

Crystal structure of transcriptional regulator from bacteriophage 186

• PDB DOI: https://doi.org/10.2210/pdb6VPE/pdb

• Classification: GENE REGULATION
• Organism(s): Eganvirus ev186
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-02-03 Released: 2021-06-16 
• Deposition Author(s): Truong, J.Q., Panjikar, S., Bruning, J.B., Shearwin, K.E.
• Funding Organization(s): Australian Research Council (ARC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.21 Å
• R-Value Free: 
  0.283 (Depositor) 
• R-Value Work: 
  0.227 (Depositor) 
• R-Value Observed: 
  0.233 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a transcriptional regulator from bacteriophage 186

Truong, J.Q., Pukala, T., Panjikar, S., Bruning, J.B., Shearwin, K.S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: light scattering

Macromolecule Content 

• Total Structure Weight: 37.78 kDa 
• Atom Count: 2,340 
• Modeled Residue Count: 285 
• Deposited Residue Count: 330 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Regulatory protein CII	A, B	165	Eganvirus ev186	Mutation(s): 0  Gene Names: CII, CP76
UniProt
Find proteins for P21678 (Escherichia phage 186) Explore P21678  Go to UniProtKB:  P21678

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IOD	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B], H [auth B]	IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.21 Å
• R-Value Free:  0.283 (Depositor) 
• R-Value Work:  0.227 (Depositor) 
• R-Value Observed: 0.233 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167.86	α = 90
b = 46.14	β = 99.42
c = 38.31	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
Aimless	data scaling
MR-Rosetta	phasing

Structure Validation

Currently 6VPE does not have a validation slider image.

Entry History & Funding Information

Deposition Data

• Released Date: 2021-06-16 
Deposition Author(s): Truong, J.Q., Panjikar, S., Bruning, J.B., Shearwin, K.E.

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Funding Organization	Location	Grant Number
Australian Research Council (ARC)	Australia	DP150103009
Australian Research Council (ARC)	Australia	DP160101450

Revision History  

• Version 1.0: 2021-06-16
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-06
  Changes: Structure summary