Hide/show bands groups: Type of Double Helices Sugar Conformation Markers for Specific Nucleosides Base-Sugar Conformation and Sugar-Puckering Common IR Bands for Both DNA and RNA RNA Specific DNA Specific Solvent

D₂O : in plane base vibration, sensitive to base pairing and base stacking

H₂O : base-sugar, sensitive to glycosidic bond rotation, backbone conformation and sugar puckering

H₂O/D₂O : sugar-phosphate vibrations, sensitive to backbone conformation

H₂O/D₂O : sugar vibrations, sensitive to sugar conformations

H-O-H bending mode

H-O-D bending mode

D-O-D bending mode

Experiment Name	polydGC_H2O
Type	DNA
Subtype	dsDNA
Low Wavenumber	700
High Wavenumber	1800
Interval	0.2
Frequency resolution	1 cm^-1
Estimated Strand's concentration	10.20 mM concentration was estimated based on the Beer-Lambert's law using formula C = OD/(ε x pathlength). ε was estimated with the help of OligoSpec Calculator
Pathlength	5-10 µm
Optical Density	3.5
Solvent	H2O
Solvent Comment	solution
Added Salt	no
Mol. Weight	Unknown
Mol. Weight Ratio	Unknown
Cell Id	ZnSe
Units	DO,cm-1
Temperature	25
Temperature Comment	It is the ambient temperature of the room, so around 25°
Noisy	not
Sequence Modified	no
Specific Experiment Conditions	pH around 7
Expected Structure	B-form, dG anti
Reference	DOI:10.1139/v85-315

Predicted Tertiary Structure

Model generated with AlphaFold.

Tertiary Structure present in RCSB PDB

This is a computationally predicted 3D structure provided for illustrative purposes only and to aid in the interpretation of FTIR spectra. This model was generated independently of the FTIR spectrum and may not fully represent the actual structure analyzed in the corresponding FTIR experiment.

Sequence

            GCGCGCGCGC&GCGCGCGCGC

Modified residues are showcased with the use of Modomics RNAMods code. "&" symbol means that there are mulitple separate chains.

Comments

Expected structure is Our interpretation; however, it is possible that there may be mistakes in the interpretation of spectra. In cases where we are uncertain, we have labeled the results as "possible".
The spectra were acquired under specific experimental conditions, meaning the structures are dynamic. As a result, the structures we have obtained may not be the same under different experimental conditions.

Molecular Weight and Molecular Weight Ratio was calculated using OligoCalc.

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