1YO7 | pdb_00001yo7

Re-engineering topology of the homodimeric ROP protein into a single-chain 4-helix bundle

• PDB DOI: https://doi.org/10.2210/pdb1YO7/pdb

• Classification: REPLICATION REGULATOR
• Organism(s): Escherichia coli
• Expression System: Escherichia coli K-12
• Mutation(s): Yes 


• Deposited: 2005-01-26 Released: 2005-02-15 
• Deposition Author(s): Sagermann, M., Emery, S.C., Sander, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.310 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.224 (Depositor) 

Starting Model: experimental

Literature

Re-engineering topology of the homodimeric ROP protein into a single-chain 4-helix bundle.

Sagermann, M., Emery, S.C., Sander, C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 27.46 kDa 
• Atom Count: 1,932 
• Modeled Residue Count: 240 
• Deposited Residue Count: 240 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Regulatory protein rop	A, B	120	Escherichia coli	Mutation(s): 1  Gene Names: rop
UniProt
Find proteins for P03051 (Escherichia coli) Explore P03051  Go to UniProtKB:  P03051

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.310 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.224 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.607	α = 90
b = 52.83	β = 94.99
c = 50.36	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
XDS	data reduction
MLPHARE	phasing
CNS	refinement
AMoRE	phasing
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-02-15 
Deposition Author(s): Sagermann, M., Emery, S.C., Sander, C.

Revision History  

• Version 1.0: 2005-02-15
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-08-02
  Changes: Refinement description, Source and taxonomy
• Version 1.4: 2017-10-11
  Changes: Refinement description
• Version 1.5: 2021-10-20
  Changes: Database references, Derived calculations
• Version 1.6: 2023-08-23
  Changes: Data collection, Refinement description