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Record for CD0000068000 (Superoxide dismutase [Cu-Zn])

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Sample

PCDDBIDCD0000068000
Protein NameSuperoxide dismutase [Cu-Zn]
Alternative Protein NamesSOD
Source OrganismBos taurus
Protein SupplierNo data provided
Expression System or natural sourcenatural source
Expressed AsWild-type
Mutation DetailsNo data provided
Expression tags (if any)No data provided
Ligands Present and Concentration or ratioNo data provided
Macromolecular Partner(s) and Concentration or ratioNo data provided
Deposition Date2009-11-28

Spectra

PCDDBIDCD0000068000
Raw Sample Spectra file   chart
Dichroism Units of Raw Sample DataMillidegrees
HT / High Voltage / Dynode Spectra file   chart
Raw Baseline Spectra file   chart
Dichroism Units of Raw Baseline DataMillidegrees
Average Sample file   chart
Dichroism Units of Average Sample DataMillidegrees
Averaged Baseline file   chart
Dichroism Units of Averaged Baseline DataMillidegrees
Net Smoothed Spectrum file   chart
Dichroism Units of Net Smoothed DataMillidegrees
Final Processed Spectrum file   chart
Dichroism Units of Processed DataDelta Epsilon

Experiment

PCDDBIDCD0000068000
CD or SRCDSRCD
Protein Concentration (mg/ml)22.92
Concentration Quantification MethodQAA
Protein Purity (%)100
Purity Quantification MethodMass Spectrometry
Buffer Contents and Concentrationswater
Baseline Contentswater
Experimental Temperature (C)4
Instrument or beamlineDaresbury 12.1
Detector Angle (Scattering Angle)No data provided
Sample Cell Pathlength (cm)0.00056
Cell Pathlength Calibration MethodInterferometry
Sample Cell TypeCylindrical-Demountable
Sample Cell CompositionCaF2
Sample Chamber AtmosphereNitrogen
Number of repeat scans3
Continuous or Stepped scanNo data provided
Maximum (highest) wavelength, nm279
Minimum (lowest) wavelength, nm175
Criteria for low wavelength cutoffHT value
Wavelength interval, nm1
Dwell or Averaging time, seconds1
Experimental Collection date2004-11-24
Local Spectrum Identifierr12656

Calibration

PCDDBIDCD0000068000
CSA or ACSCSA
CSA/ACS Standard Spectrum file   chart
Dichroism Units for CSA StandardMillidegrees (theta)
Final Spectrum CalibratedNo data provided
CSA/ACS Standard Concentration (mg/ml)11.4
CSA/ACS Pathlength (mm)0.1
CSA/ACS Zeroed atNo data provided
CSA/ACS Date Measured2004-11-24
CSA/ACS Ratio (192.5nm and 290.0 nm)1.96
CD signal at 290nm (mdeg)37.4
CSA/ACS Experiment temperature, C25

Data Process

PCDDBIDCD0000068000
Molecular Weight15552
Number of Residues151
Mean Residue Weight103.7
Data Processing Software NameCDTool
Data Processing Software Version1.4
Number of Smoothing Points5
Wavelength Range for Zeroing263-270

Sec. Struct.

PCDDBIDCD0000068000
Secondary Structure Calculated fromPDB File
DSSP value: alpha helix0.013
DSSP value: 3-10 helix0.030
DSSP value: pi helix0.000
DSSP value: beta strand0.391
DSSP value: beta bridge0.026
DSSP value: bonded turn0.162
DSSP value: bend0.142
DSSP value: loop or irregular0.235

Info.

PCDDBIDCD0000068000
PDB ID1cbj: RSCBpdb PDBj PDBe
UniProt IDP00442
Enzyme Classification (EC)1.15.1.1
Medline Entry16787970 (pubmed)
Cath Classification2.60.40.200
SequenceATKAVCVLKG DGPVQGTIHF EAKGDTVVVT GSITGLTEGD HGFHVHQFGD NTQGCTSAGP HFNPLSKKHG GPKDEERHVG DLGNVTADKN GVAIVDIVDP LISLSGEYSI IGRTMVVHEK PDDLGRGGNE ESTKTGNAGS RLACGVIGIA K
Type of proteinsoluble globular
Keyword/phrase ASP175
Keyword/phrase Bsingle domain type
Keyword/phrase Cbeta
Keyword/phrase DNo data provided
Keyword/phrase ENo data provided
Keyword/phrase FNo data provided
Keyword/phrase GNo data provided
Keyword/phrase HNo data provided
Keyword/phrase INo data provided
Keyword/phrase JNo data provided
Publication AuthorsLees, J.G., Wien, F., Miles, A.J. & Wallace, B.A.,
Publication Year2006
Publication JournalBioinformatics
Publication TitleA reference database for circular dichroism spectroscopy covering fold and secondary structure space
Publication Volume22
Publication Pages1955-1962
Citation Publication file

Depositor

PCDDBIDCD0000068000
Depositor NameAndrew Miles
Department/School nameCrystallography
University/Institution/CorporationBirkbeck
Depositor CountryUnited Kingdom
Name of Principal Investigator (if not depositor)B.A. Wallace

Validation

PCDDBID CD0000068000
Maximum Delta Epsilon PASS
Minimal Level of Maximum Delta Epsilon PASS
Signal to noise ratio PASS
Deviations from zero PASS
High Tension Voltage readings PASS
Wavelength range covered (low end / high end) PASS PASS
Interval resolution PASS
Deviation between 260-270nm PASS
Mean Residue Weight value PASS
Flat topped peaks PASS
CSA or ACS standard used PASS
Width of peaks at half height PASS
Peak and trough locations PASS
Spectral Feature Width PASS
CSA / ACS peak ratio PASS
Calibration data at 290nm PASS
Sum of DSSP fractions PASS
Overall validation level is: PASS
Validation report compiled by Validichro v1.0, 2009-12-15, 13:00.
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