View & Download CD data for CD0003898000

3-isopropylmalate Dehydrogenase (3-ipmdh)

Citation: No citation information currently associated with this entry.

Citation: The PCDDB (protein circular dichroism data bank): A bioinformatics resource for protein characterisations and methods development.
Ramalli SG, Miles AJ, Janes RW, Wallace BA., J Mol Biol (2022)

CSA/ACS Standard Spectrum ---- Please select ---- Download
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Raw Sample Spectra Millidegrees (theta) Download
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Raw Sample Spectra 2 Millidegrees (theta) Download
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Raw Sample Spectra 3 Millidegrees (theta) Download
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Raw Sample Spectra 4 Millidegrees (theta) Download
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Raw Sample Spectra 5 Millidegrees (theta) Download
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Raw Sample Spectra 6 Millidegrees (theta) Download
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Raw Baseline Spectra Millidegrees (theta) Download
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Raw Baseline Spectra 2 Millidegrees (theta) Download
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Raw Baseline Spectra 3 Millidegrees (theta) Download
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Average Sample Millidegrees (theta) Download
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Averaged Baseline Millidegrees (theta) Download
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HT / High Voltage / Dynode Spectra HT/Dynode Units Download
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HT / High Voltage / Dynode Spectra 2 HT/Dynode Units Download
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HT / High Voltage / Dynode Spectra 3 HT/Dynode Units Download
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HT / High Voltage / Dynode Spectra 4 HT/Dynode Units Download
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HT / High Voltage / Dynode Spectra 5 HT/Dynode Units Download
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HT / High Voltage / Dynode Spectra 6 HT/Dynode Units Download
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Net Smoothed Spectrum Millidegrees (theta) Download
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Final Processed Spectrum Delta Epsilon Download
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Validation report compiled by Validichro v1.4.0, 2015-04-01, 4:01pm. - FLAG

At a glance
Downloads 2566
Depositor Frank Wien
Uniprot Q5SIY4
Alpha Fold
PDB 2Y3Z
EC 1.1.1.85
CATH Class 3.40.718.10
Protein Type soluble globular
Go to section
Sample
Experiment
Calibration
Data Process.
Sec. Struct.
Tertiary
Depositor
Validation

Sample

Protein Name 3-isopropylmalate dehydrogenase ?
Alternative Protein Names 3-IPMDH ?
Source Organism Thermus thermophilus ?
Protein Supplier Mria Vass, Institute of Enzymology, Hung. Acad. Sci. ?
Expression System or natural source E. coli ?
Expressed As Wild-type ?
Mutation Details cloned following the 2y3z.pdb ?
Expression tags (if any) C,AAALEHHHHHH ?
Ligands Present and Concentration or ratio No data provided ?
Macromolecular Partner(s) and Concentration or ratio No data provided ?
Deposition Date 2015-04-01 ?

Experiment

CD or SRCD SRCD ?
Protein Concentration (mg/ml) 15.5 ?
Concentration Quantification Method QAA ?
Protein Purity (%) >95% ?
Purity Quantification Method SDS gels ?
Buffer Contents and Concentrations 10mM Phophate buffer pH 7.5 ?
Baseline Contents dialysate ?
Experimental Temperature (C) 20 ?
Instrument or beamline Soleil DISCO ?
Detector Angle (Scattering Angle) 60 ?
Sample Cell Pathlength (cm) 0.0005 ?
Cell Pathlength Calibration Method Interferometry ?
Sample Cell Type Cylindrical-Demountable ?
Sample Cell Composition CaF2 ?
Sample Chamber Atmosphere Nitrogen ?
Number of repeat scans 6 ?
Continuous or Stepped scan Stepped ?
Maximum (highest) wavelength, nm 271 ?
Minimum (lowest) wavelength, nm 180 ?
Criteria for low wavelength cutoff HT value ?
Wavelength interval, nm 1 ?
Dwell or Averaging time, seconds 1.2 ?
Experimental Collection date 2012-04-04 ?
Local Spectrum Identifier paprika8 ?

Calibration

CSA or ACS CSA ?
Dichroism Units for CSA Standard No data provided ?
Final Spectrum Calibrated YES ?
CSA/ACS Standard Concentration (mg/ml) 6.3 ?
CSA/ACS Pathlength (mm) 0.1 ?
CSA/ACS Zeroed at 230-245 ?
CSA/ACS Date Measured 2012-04-04 ?
CSA/ACS Ratio (192.5nm and 290.0 nm) 1.95 ?
CD signal at 290nm (mdeg) 23.9 ?
CSA/ACS Experiment temperature, C 25 ?

Data process.

Molecular Weight 38347.9 ?
Number of Residues 359 ?
Mean Residue Weight 107.12 ?
Data Processing Software Name CDTool ?
Data Processing Software Version latest ?
Wavelength Range for Zeroing 263-267 ?
Number of Smoothing Points 7 ?

Sec. struct.

Secondary Structure Calculated from 2Y3Z.pdb ?
DSSP value: alpha helix 0.412 ?
DSSP value: 3-10 helix 0.058 ?
DSSP value: pi helix 0.0 ?
DSSP value: beta strand 0.17 ?
DSSP value: beta bridge 0.0 ?
DSSP value: bonded turn 0.0 ?
DSSP value: bend 0.081 ?
DSSP value: loop or irregular 0.184 ?

Tertiary

PDB ID 2Y3Z ?
UniProt ID Q5SIY4 ?
Enzyme Classification (EC) 1.1.1.85 ?
Medline Entry No data provided ?
Cath Classification 3.40.718.10 ?
Sequence MASMKVAVLP GDGIGPEVTE AALKVLRALD EAEGLGLAYE VFPFGGAAID AFGEPFPEPT RKGVEEAEAV LLGSVGGPKW DGLPRKIRPE TGLLSLRKSQ DLFANLRPAK VFPGLERLSP LKEEIARGVD VLIVRELTGG IYFGEPRGMS EAEAWNTERY SKPEVERVAR VAFEAARKRR KHVVSVDKAN VLEVGEFWRK TVEEVGRGYP DVALEHQYVD AMAMHLVRSP ARFDVVVTGN IFGDILSDLA SVLPGSLGLL PSASLGRGTP VFEPVHGSAP DIAGKGIANP TAAILSAAMM LEHAFGLVEL ARKVEDAVAK ALLETPPPDL GGSAGTEAFT ATVLRHLAAA ALEHHHHHH ?
Type of protein soluble globular ?
Keyword/phrase A Oxidoreductase ?
Keyword/phrase B No data provided ?
Keyword/phrase C No data provided ?
Keyword/phrase D No data provided ?
Keyword/phrase E No data provided ?
Keyword/phrase F No data provided ?
Keyword/phrase G No data provided ?
Keyword/phrase H No data provided ?
Keyword/phrase I No data provided ?
Keyword/phrase J No data provided ?
Publication Authors No data provided ?
Publication Year No data provided ?
Publication Journal No data provided ?
Publication Title No data provided ?
Publication Volume No data provided ?
Publication Pages No data provided ?

Depositor

Depositor Name Frank Wien ?
Department/School name Experiences ?
University/Institution/Corporation SOLEIL Synchrotron ?
Depositor Country France ?
Name of Principal Investigator (if not depositor) József Kardos ?

Validation report compiled by Validichro v1.4.0, 2015-04-01, 4:01pm. - FLAG

Depositors Notes: The Uniprot sequence does not match precisely because the protein is a cloned one.

Missing Wavelengths PASS ?
Maximum Delta Epsilon PASS ?
Minimal Level of Maximum Delta Epsilon PASS ?
Peak Locations PASS ?
Feature Width PASS ?
Experimental Temperature PASS ?
UniProt sequence FLAG ?
Molecular Weight PASS ?
Number of Residues PASS ?
Mean Residue Weight value PASS ?
Concentration and Pathlength PASS ?
CSA / ACS peak ratio PASS ?
CSA / ACS Temperature PASS ?
Peak Shift test PASS ?
Standard Deviation PASS ?
Noise: 260-270nm PASS ?
Flat topped peaks PASS ?
Wavelength range PASS ?
Interval resolution PASS ?
High Tension Voltage 240-260nm PASS ?
Projection Test PASS ?
Standard Deviation At Peak PASS ?
Depositor Note The Uniprot sequence does not match precisely because the protein is a cloned one. ?

The PCDDB is a development of the Department of Biological Sciences, Institute of Structural and Molecular Biology, Birkbeck College, University of London and the School of Biological and Chemical Sciences, Queen Mary University of London, UK. It is supported by a grant from the BBSRC. Copyright of the design and implementation of this site are retained by the schools and the authors.


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