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Cd spectrometer

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The CD spectrometer is an analytical instrument used to measure the circular dichroism (CD) of a sample. CD is the difference in the absorption of left-handed and right-handed circularly polarized light by a sample. The CD spectrometer measures this difference across a range of wavelengths, providing information about the structure and conformation of chiral molecules, such as proteins and nucleic acids.

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Lab products found in correlation

Rp 18 f254s plates, by Merck Group (1 mentions) Dip 370 automatic polarimeter, by Jasco (1 mentions) 400 mr nmr spectrometer, by Agilent Technologies (1 mentions) 6550 ifunnel q tof lc ms system, by Agilent Technologies (1 mentions) Silica gel 60 f254, by Merck Group (1 mentions) 1200 hplc system, by Agilent Technologies (1 mentions) Rp 18, by GE Healthcare (1 mentions) Avance 3 500 mhz nmr spectrometer, by Bruker (1 mentions) Triple tof 6600 lc ms system, by AB Sciex (1 mentions) Sephadex lh 20, by GE Healthcare (1 mentions)

15 protocols using cd spectrometer

1

Circular Dichroism Spectroscopy Protocol

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CD spectra were collected using a Chirascan CD spectrometer at 23°C and a quartz cuvette with a 1-mm path length. Data were collected in the wavelength range of 190 to 260 nm, using a 1-nm bandwidth, 1-nm steps, and an averaging time of 0.5 s. Every measurement was repeated eight times, and data were then averaged and smoothed (5°) using built-in options of Chirascan Q100 software.
Mohammadi P., Aranko A.S., Landowski C.P., Ikkala O., Jaudzems K., Wagermaier W, & Linder M.B. (2019). Biomimetic composites with enhanced toughening using silk-inspired triblock proteins and aligned nanocellulose reinforcements. Science Advances, 5(9), eaaw2541.
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2

CD Spectroscopy Analysis of Pol β Variants

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CD spectroscopy analysis was performed as previously described [52 (link)]. Purified WT and R152C Pol β proteins were diluted to 1 μM with KH2PO4, and their CD spectra were detected at 20°C using a Chirascan CD spectrometer. Measurements were collected at intervals of 1 nm from 190 to 280 nm.
Zhou T., Pan F., Cao Y., Han Y., Zhao J., Sun H., Zhou X., Wu X., He L., Hu Z., Chen H., Shen B, & Guo Z. (2016). R152C DNA Pol β mutation impairs base excision repair and induces cellular transformation. Oncotarget, 7(6), 6902-6915.
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3

Analytical Methods for Natural Product Characterization

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Chemical shifts are reported in parts per million from TMS. All NMR spectra were recorded on an Agilent 400-MR-NMR spectrometer (Santa Clara, CA, USA) operated at 400 and 100 MHz for hydrogen and carbon, respectively. Data processing was carried out with the MestReNova ver.6.0.2 program. HR-ESI-MS spectra were obtained using an AGILENT 6550 iFunnel Q-TOF LC/MS system (Santa Clara, CA, USA). Optical rotations were determined on a Jasco DIP-370 automatic polarimeter. Circular dichroism spectrums were determined on a Chirascan™ CD spectrometer. Preparative HPLC was carried out using an AGILENT 1200 HPLC system. Column chromatography was performed on silica gel (Kieselgel 60, 70-230 mesh and 230-400 mesh, Merck, Darmstadt, Germany) or YMC RP-18 resins (30–50 μm, Fuji Silysia Chemical Ltd. Aichi, Japan). For thin-layer chromatography (TLC), a pre-coated silica-gel 60 F254 (0.25 mm, Merck) and RP-18 F254S plates (0.25 mm, Merck) were used.
Oh Y., Lee D., Park S., Kim S.H, & Kang K.S. (2021). The Chemical Constituents from Fruits of Catalpa bignonioides Walt. and Their α-Glucosidase Inhibitory Activity and Insulin Secretion Effect. Molecules, 26(2), 362.
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4

Circular Dichroism Analysis of MenE

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CD experiments were performed using a Chirascan CD spectrometer. MenE was diluted to 10 μM in 350 μL 20 mM NaHPO4 buffer pH 7.4 containing 150 mM NaCl and 1 mM MgCl2. Far-UV wavelength (190–260 nm) spectra were collected in triplicate using a 1 mm cuvette in 1 nm increments. Data were collected using Chirascan software and reprocessed using MATLAB. The mean residue ellipticity (deg cm2 dmol−1 residue−1) was calculated using the following equation:
Θ=Ellipticity∕(path lengh⋅[protein]⋅n)
where the path length is in mm, protein concentration is in M, and n is the number of peptide bonds.
Matarlo J.S., Evans C.E., Sharma I., Lavaud L.J., Ngo S.C., Shek R., Rajashankar K.R., French J.B., Tan D.S, & Tonge P.J. (2015). Mechanism of MenE Inhibition by Acyl-Adenylate Analogues and Discovery of Novel Antibacterial Agents. Biochemistry, 54(42), 6514-6524.
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5

CD Spectra of DNA Structures

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CD spectra were acquired on Chirascan CD spectrometer at 25°C using 0.1 and 2.0 mm light path quartz cuvettes. All samples for CD, except the TBA9D one, were prepared by dilution of the NMR samples to final 50 μM DNA concentration in 50 mM KCl solution. CD spectrum of TBA9D was recorded on a smaller volume of undiluted NMR sample with 100 mM KCl. Spectra were acquired in the wavelength range from 220 to 420 nm.
Kovačič M., Podbevšek P., Tateishi-Karimata H., Takahashi S., Sugimoto N, & Plavec J. (2020). Thrombin binding aptamer G-quadruplex stabilized by pyrene-modified nucleotides. Nucleic Acids Research, 48(7), 3975-3986.
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6

CD Spectroscopy of Glucagon Analogues

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The CD measurements of the series of dual glucagon-like peptide 1/glucagon receptor agonists were performed by the Chirascan CD spectrometer in a 2 mm pathlength cuvette at 25 °C. The spectra were recorded from 190 to 260 nm and averaged over 3 scans with a resolution of 0.5 nm, a bandwidth of 1.0 nm and a response time of 3 s. All peptides were dissolved to 40 μmol/L in PBS or 50% TFE. The mean residue ellipticity was plotted vs wavelength.
Zhao Q., Dong J., Liu H., Chen H., Yu H., Ye S., Yu S., Li Y., Qiu L., Song N., Xu H., Liu Q., Luo Z., Li Y., Wang R., Chen G, & Jiang X. (2023). Design and discovery of a highly potent ultralong-acting GLP-1 and glucagon co-agonist for attenuating renal fibrosis. Acta Pharmaceutica Sinica. B, 14(3), 1283-1301.
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7

Circular Dichroism Analysis of CEB1 G4

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Circular dichroism spectra of 7.5 μM CEB1 G4 oligonucleotide in 10.5 mM KCl were collected from 200 to 330 nm with a spectral bandwidth of 1 nm using a Chirascan CD Spectrometer. The spectrum shown is an average of three technical replicates.
Isik E., Shukla K., Pospisilova M., König C., Andrs M., Rao S., Rosano V., Dobrovolna J., Krejci L, & Janscak P. (2024). MutSβ-MutLβ-FANCJ axis mediates the restart of DNA replication after fork stalling at cotranscriptional G4/R-loops. Science Advances, 10(6), eadk2685.
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8

Circular Dichroism Analysis of Purified Proteins

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Circular dichroism (CD) spectra were collected for all the purified proteins (five μM) using the Chirascan CD spectrometer in a one mm path length cell at 20 °C. A total of 25 spectral accumulations were obtained at each wavelength, ranging from 200 to 280 nm, and averaged. The response time was 1 s with spectral bandwidth of 2.5 nm. Secondary structural elements were estimated using Contin-LL.
Iyer S., Subramanian V, & Acharya K.R. (2018). C9orf72, a protein associated with amyotrophic lateral sclerosis (ALS) is a guanine nucleotide exchange factor. PeerJ, 6, e5815.
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9

CD Spectroscopy of Glucagon Analogues

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The CD measurements of the series of dual glucagon-like peptide 1/glucagon receptor agonists were performed by the Chirascan CD spectrometer in a 2 mm pathlength cuvette at 25 °C. The spectra were recorded from 190 to 260 nm and averaged over 3 scans with a resolution of 0.5 nm, a bandwidth of 1.0 nm and a response time of 3 s. All peptides were dissolved to 40 μmol/L in PBS or 50% TFE. The mean residue ellipticity was plotted vs wavelength.
Zhao Q., Dong J., Liu H., Chen H., Yu H., Ye S., Yu S., Li Y., Qiu L., Song N., Xu H., Liu Q., Luo Z., Li Y., Wang R., Chen G, & Jiang X. (2023). Design and discovery of a highly potent ultralong-acting GLP-1 and glucagon co-agonist for attenuating renal fibrosis. Acta Pharmaceutica Sinica. B, 14(3), 1283-1301.
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10

CD Spectroscopy of DNA Samples

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CD spectra were acquired on Chirascan CD spectrometer at 25°C using 2.0 mm light path quartz cuvettes. All samples for CD were prepared by dilution of NMR samples to final 50 μM DNA concentrations in 20 mM potassium phosphate buffer, pH 7, and 70 mM KCl solution. CD spectra were acquired in the wavelength range from 220 to 320 nm.
Bielskutė S., Plavec J, & Podbevšek P. (2021). Oxidative lesions modulate G-quadruplex stability and structure in the human BCL2 promoter. Nucleic Acids Research, 49(4), 2346-2356.
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