3G2R | pdb_00003g2r

Crystal structure of d(CACGCG).d(CGCGTG) cocrystallized with MnCl2

• PDB DOI: https://doi.org/10.2210/pdb3G2R/pdb
• NAKB: 3G2R

• Classification: DNA
• Mutation(s): No 


• Deposited: 2009-02-01 Released: 2009-03-03 
• Deposition Author(s): Venkadesh, S., Mandal, P.K., Kannan, R., Gautham, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.270 (Depositor), 0.340 (DCC) 
• R-Value Work: 
  0.269 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.269 (Depositor) 

Literature

Crystal studies of d(CACGCG).d(CGCGTG) grown with various counter ions

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

To be published.

Biological Assembly 1  

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 2.19 kDa 
• Atom Count: 131 
• Modeled Residue Count: 6 
• Deposited Residue Count: 6 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*CP*GP*TP*GP*CP*G)-3'	A	6	N/A

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DCM	B [auth A]	2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE C9 H14 N3 O7 P NCMVOABPESMRCP-SHYZEUOFSA-N
MN	C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.270 (Depositor), 0.340 (DCC) 
• R-Value Work:  0.269 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.269 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 17.878	α = 90
b = 30.97	β = 90
c = 43.405	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-03 
Deposition Author(s): Venkadesh, S., Mandal, P.K., Kannan, R., Gautham, N.

Revision History  

• Version 1.0: 2009-03-03
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-03-20
  Changes: Data collection, Database references, Derived calculations