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Record for CD0000109000 (Rhomboid protease glpG)

Download the PCDDB data file for this record

Sample

PCDDBIDCD0000109000
Protein NameRhomboid protease glpG
Alternative Protein NamesIntramembrane serine protease
Source OrganismHaemophilus influenzae
Protein SupplierM.James, Alberta
Expression System or natural sourceE. coli
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 Date2011-08-19

Spectra

PCDDBIDCD0000109000
Raw Sample Spectra file   chart
Dichroism Units of Raw Sample DataMillidegrees (theta)
HT / High Voltage / Dynode Spectra file   chart
Raw Baseline Spectra file   chart
Dichroism Units of Raw Baseline DataMillidegrees (theta)
Average Sample file   chart
Dichroism Units of Average Sample DataMillidegrees (theta)
Averaged Baseline file   chart
Dichroism Units of Averaged Baseline DataMillidegrees (theta)
Net Smoothed Spectrum file   chart
Dichroism Units of Net Smoothed DataMillidegrees (theta)
Final Processed Spectrum file   chart
Dichroism Units of Processed DataDelta Epsilon

Experiment

PCDDBIDCD0000109000
CD or SRCDSRCD
Protein Concentration (mg/ml)1.85
Concentration Quantification MethodNanodrop
Protein Purity (%)No data provided
Purity Quantification MethodNo data provided
Buffer Contents and Concentrations25mM Tris pH8, 200mM NaCl, 20% Glycerol, 0.05% C12E8, 0.5mM EDTA
Baseline Contents25mM Tris pH8, 200mM NaCl, 20% Glycerol, 0.05% C12E8, 0.5mM EDTA
Experimental Temperature (C)10
Instrument or beamlineISA UV1
Detector Angle (Scattering Angle)No data provided
Sample Cell Pathlength (cm)0.0024
Cell Pathlength Calibration MethodInterferometry
Sample Cell TypeCylindrical-Demountable
Sample Cell CompositionCaF2
Sample Chamber AtmosphereNitrogen
Number of repeat scans3
Continuous or Stepped scanStepped
Maximum (highest) wavelength, nm280
Minimum (lowest) wavelength, nm180
Criteria for low wavelength cutoffHT value
Wavelength interval, nm1
Dwell or Averaging time, seconds2
Experimental Collection date2007-08-23
Local Spectrum Identifiera11187

Calibration

PCDDBIDCD0000109000
CSA or ACSCSA
CSA/ACS Standard Spectrum file   chart
Dichroism Units for CSA StandardMillidegrees (theta)
Final Spectrum CalibratedYES
CSA/ACS Standard Concentration (mg/ml)5.50
CSA/ACS Pathlength (mm)0.10
CSA/ACS Zeroed at235-245
CSA/ACS Date Measured2007-08-23
CSA/ACS Ratio (192.5nm and 290.0 nm)2.03
CD signal at 290nm (mdeg)18.1
CSA/ACS Experiment temperature, C25

Data Process

PCDDBIDCD0000109000
Molecular Weight21657.4
Number of Residues192
Mean Residue Weight113.4
Data Processing Software NameCDTool
Data Processing Software Version1.4
Number of Smoothing Points7
Wavelength Range for Zeroing263-270

Sec. Struct.

PCDDBIDCD0000109000
Secondary Structure Calculated fromcrystal structure
DSSP value: alpha helix0.617
DSSP value: 3-10 helix0.041
DSSP value: pi helix0.000
DSSP value: beta strand0.000
DSSP value: beta bridge0.000
DSSP value: bonded turn0.107
DSSP value: bend0.077
DSSP value: loop or irregular0.158

Info.

PCDDBIDCD0000109000
PDB ID2nr9: RSCBpdb PDBj PDBe
UniProt IDP44783
Enzyme Classification (EC)3.4.21.105
Medline Entry21505036 (pubmed)
Cath Classification1.20.1540.10
SequenceMKNFLAQQGK ITLILTALCV LIYLAQQLGF EDDIMYLMHY PAYEEQDSEV WRYISHTLVH LSNLHILFNL SWFFIFGGMI ERTFGSVKLL MLYVVASAIT GYVQNYVSGP AFFGLSGVVY AVLGYVFIRD KLNHHLFDLP EGFFTMLLVG IALGFISPLF GVEMGNAAHI SGLIVGLIWG FIDSKLRKNS LE
Type of proteinmembrane
Keyword/phrase AMP180
Keyword/phrase BSMP180
Keyword/phrase Cmembrane protein
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 AuthorsAli Abdul-Gader, Andrew John Miles and B.A. Wallace
Publication Year2011
Publication JournalBioinformatics
Publication TitleA Reference Dataset for the Analyses of Membrane Protein Sec-ondary Structures and Transmembrane Residues using Circular Dichroism Spectroscopy
Publication Volume27
Publication Pages1630-1636
Citation PublicationNo data provided

Depositor

PCDDBIDCD0000109000
Depositor NameAndrew Miles
Department/School namecrystallography
University/Institution/CorporationBirkbeck
Depositor CountryUnited Kingdom
Name of Principal Investigator (if not depositor)BA Wallace

Validation

PCDDBID CD0000109000
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 PASS
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 INSUFFICIENT DATA
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
Overall validation level is: PASS
Validation report compiled by Validichro v1.2.5, 2011-08-19, 10:48am.
Depositor comment for validation report :
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