3FQ5 | pdb_00003fq5

Crystal Structure of d(CACGCG).d(CGCGTG) with 10mM MnCl2

• PDB DOI: https://doi.org/10.2210/pdb3FQ5/pdb
• NAKB: 3FQ5

• Classification: DNA
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2009-01-07 Released: 2009-02-10 
• Deposition Author(s): Venkadesh, S., Kannan, R., Mandal, P.K., Gautham, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.202 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.165 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.167 (Depositor) 

Literature

Crystal Structure of d(CACGCG).d(CGCGTG) with 10mM MnCl2

Venkadesh, S., Mandal, P.K., Gautham, N.

To be published.

Biological Assembly 1  

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

Biological Assembly 2  

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 7.35 kDa 
• Atom Count: 494 
• Modeled Residue Count: 24 
• Deposited Residue Count: 24 
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*CP*AP*CP*GP*CP*G)-3'	A, C	6	synthetic construct

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-D(*CP*GP*CP*GP*TP*G)-3'	B, D	6	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MN	E [auth A], F [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.202 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.165 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.167 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 24.612	α = 90
b = 31.257	β = 103.64
c = 31.962	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
REFMAC	refinement
AUTOMAR	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-02-10 
Deposition Author(s): Venkadesh, S., Kannan, R., Mandal, P.K., Gautham, N.

Revision History  

• Version 1.0: 2009-02-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2019-08-28
  Changes: Data collection, Source and taxonomy
• Version 1.3: 2024-03-20
  Changes: Data collection, Database references, Derived calculations