7EOF

Structure of CCDC25-DNA complex

• PDB DOI: https://doi.org/10.2210/pdb7EOF/pdb
• NAKB: 7EOF

• Classification: DNA BINDING PROTEIN/DNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-04-22 Released: 2022-11-02 
• Deposition Author(s): Liu, Y.R.
• Funding Organization(s): Not funded

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.73 Å
• R-Value Free: 0.261 
• R-Value Work: 0.229 
• R-Value Observed: 0.231 

Literature

Structure of CCDC25-DNA complex

Liu, Y.R.

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.

Macromolecule Content

• Total Structure Weight: 57.88 kDa 
• Atom Count: 3,611 
• Modelled Residue Count: 393 
• Deposited Residue Count: 440 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Coiled-coil domain-containing protein 25	C [auth B], D [auth A]	204	Homo sapiens	Mutation(s): 0  Gene Names: CCDC25
UniProt & NIH Common Fund Data Resources
Find proteins for Q86WR0 (Homo sapiens) Explore Q86WR0  Go to UniProtKB:  Q86WR0
PHAROS:  Q86WR0 GTEx:  ENSG00000147419

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*GP*AP*TP*CP*TP*AP*CP*TP*AP*GP*TP*GP*AP*TP*CP*T)-3')	A [auth C]	16	Homo sapiens

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*CP*AP*GP*AP*TP*CP*AP*CP*TP*AP*GP*TP*AP*GP*AP*T)-3')	B [auth D]	16	Homo sapiens

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.73 Å
• R-Value Free: 0.261 
• R-Value Work: 0.229 
• R-Value Observed: 0.231 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.028	α = 90
b = 74.795	β = 90
c = 103.618	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALA	data scaling
PDB_EXTRACT	data extraction
HKL-3000	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-11-02 
Deposition Author(s): Liu, Y.R.

---

Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2022-11-02
  Type: Initial release
  
• Version 1.1: 2024-04-03
  Changes: Data collection, Refinement description