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Record for CD0000054000 (Pectate lyase C)

Download the PCDDB data file for this record

Sample

PCDDBIDCD0000054000
Protein NamePectate lyase C
Alternative Protein NamesPelC
Source OrganismErwinia chrysanthemi
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 Date2009-11-27

Spectra

PCDDBIDCD0000054000
Raw Sample Spectra file   chart
Dichroism Units of Raw Sample DataDaresbury Arbitrary Units
HT / High Voltage / Dynode Spectra file   chart
Raw Baseline Spectra file   chart
Dichroism Units of Raw Baseline DataDaresbury Arbitrary Units
Average Sample file   chart
Dichroism Units of Average Sample DataDaresbury Arbitrary Units
Averaged Baseline file   chart
Dichroism Units of Averaged Baseline DataDaresbury Arbitrary Units
Net Smoothed Spectrum file   chart
Dichroism Units of Net Smoothed DataDaresbury Arbitrary Units
Final Processed Spectrum file   chart
Dichroism Units of Processed DataDelta Epsilon

Experiment

PCDDBIDCD0000054000
CD or SRCDSRCD
Protein Concentration (mg/ml)10.8
Concentration Quantification MethodQAA
Protein Purity (%)No data provided
Purity Quantification MethodNo data provided
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)0.0015
Cell Pathlength Calibration MethodInterferometry
Sample Cell TypeCylindrical-Demountable
Sample Cell CompositionSuprasil
Sample Chamber AtmosphereNitrogen
Number of repeat scans3
Continuous or Stepped scanNo data provided
Maximum (highest) wavelength, nm300
Minimum (lowest) wavelength, nm175
Criteria for low wavelength cutoffHT value
Wavelength interval, nm1
Dwell or Averaging time, seconds1
Experimental Collection date2003-10-31
Local Spectrum Identifierr7182

Calibration

PCDDBIDCD0000054000
CSA or ACSCSA
CSA/ACS Standard Spectrum file   chart
Dichroism Units for CSA StandardDRS units
Final Spectrum CalibratedNo data provided
CSA/ACS Standard Concentration (mg/ml)9.64
CSA/ACS Pathlength (mm)0.1
CSA/ACS Zeroed at320-340
CSA/ACS Date Measured2003-10-31
CSA/ACS Ratio (192.5nm and 290.0 nm)2.09
CD signal at 290nm (mdeg)No data provided
CSA/ACS Experiment temperature, C25

Data Process

PCDDBIDCD0000054000
Molecular Weight37697
Number of Residues353
Mean Residue Weight107.1
Data Processing Software NameCDTool
Data Processing Software Version1.4
Number of Smoothing Points5
Wavelength Range for Zeroing263-267

Sec. Struct.

PCDDBIDCD0000054000
Secondary Structure Calculated fromPDB File
DSSP value: alpha helix0.088
DSSP value: 3-10 helix0.042
DSSP value: pi helix0.000
DSSP value: beta strand0.320
DSSP value: beta bridge0.020
DSSP value: bonded turn0.079
DSSP value: bend0.178
DSSP value: loop or irregular0.272

Info.

PCDDBIDCD0000054000
PDB ID1air: RSCBpdb PDBj PDBe
UniProt IDP11073
Enzyme Classification (EC)4.2.2.2
Medline Entry16787970 (pubmed)
Cath Classification2.160.20.10
SequenceATDTGGYAAT AGGNVTGAVS KTATSMQDIV NIIDAARLDA NGKKVKGGAY PLVITYTGNE DSLINAAAAN ICGQWSKDPR GVEIKEFTKG ITIIGANGSS ANFGIWIKKS SDVVVQNMRI GYLPGGAKDG DMIRVDDSPN VWVDHNELFA ANHECDGTPD NDTTFESAVD IKGASNTVTV SYNYIHGVKK VGLDGSSSSD TGRNITYHHN YYNDVNARLP LQRGGLVHAY NNLYTNITGS GLNVRQNGQA LIENNWFEKA INPVTSRYDG KNFGTWVLKG NNITKPADFS TYSITWTADT KPYVNADSWT STGTFPTVAY NYSPVSAQCV KDKLPGYAGV GKNLATLTST ACK
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

PCDDBIDCD0000054000
Depositor NameAndrew Miles
Department/School nameCrystallography
University/Institution/CorporationBirkbeck
Depositor CountryUnited Kingdom
Name of Principal Investigator (if not depositor)B.A. Wallace

Validation

PCDDBID CD0000054000
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 N/A
Peak and trough locations PASS
Spectral Feature Width N/A
CSA / ACS peak ratio PASS
Calibration data at 290nm N/A
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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