10ON | pdb_000010on

crystal form two of the Roseophage RDJLF1 GapR

• PDB DOI: https://doi.org/10.2210/pdb10ON/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Roseobacter phage RDJL Phi 1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2026-01-29 Released: 2026-09-30 
• Deposition Author(s): Schumacher, M.A.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 
  0.272 (Depositor), 0.266 (DCC) 
• R-Value Work: 
  0.223 (Depositor), 0.227 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

crystal form two of the Roseophage RDJLF1 GapR

Schumacher, M.A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 19.27 kDa 
• Atom Count: 1,213 
• Modeled Residue Count: 150 
• Deposited Residue Count: 168 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GapR-like DNA-binding domain-containing protein	A [auth E], B [auth A]	84	Roseobacter phage RDJL Phi 1	Mutation(s): 0  Gene Names: RDJLphi1_gp30
UniProt
Find proteins for F4YXP1 (Roseobacter phage RDJL Phi 1) Explore F4YXP1  Go to UniProtKB:  F4YXP1

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free:  0.272 (Depositor), 0.266 (DCC) 
• R-Value Work:  0.223 (Depositor), 0.227 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.774	α = 90
b = 48.774	β = 90
c = 182.408	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHENIX	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-09-30 
Deposition Author(s): Schumacher, M.A.

---

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM130290

Revision History  

• Version 1.0: 2026-09-30
  Type: Initial release