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Record for CD0000101000 (Bacteriorhodopsin)

Download the PCDDB data file for this record

Sample

PCDDBIDCD0000101000Help icon, hover over for help text.
Protein NameBacteriorhodopsinHelp icon, hover over for help text.
Alternative Protein NamesBRHelp icon, hover over for help text.
Source OrganismHalobacterium salinarumHelp icon, hover over for help text.
Protein SupplierP.Booth, BristolHelp icon, hover over for help text.
Expression System or natural sourcenatural sourceHelp icon, hover over for help text.
Expressed AsWild-typeHelp icon, hover over for help text.
Mutation DetailsNo data providedHelp icon, hover over for help text.
Expression tags (if any)No data providedHelp icon, hover over for help text.
Ligands Present and Concentration or ratioNo data providedHelp icon, hover over for help text.
Macromolecular Partner(s) and Concentration or ratioNo data providedHelp icon, hover over for help text.
Deposition Date2011-08-19Help icon, hover over for help text.

Spectra

PCDDBIDCD0000101000Help icon, hover over for help text.
Raw Sample SpectraNo data providedHelp icon, hover over for help text.
Dichroism Units of Raw Sample DataNo data providedHelp icon, hover over for help text.
HT / High Voltage / Dynode Spectra file   chartHelp icon, hover over for help text.
Raw Baseline SpectraNo data providedHelp icon, hover over for help text.
Dichroism Units of Raw Baseline DataNo data providedHelp icon, hover over for help text.
Average SampleNo data providedHelp icon, hover over for help text.
Dichroism Units of Average Sample DataNo data providedHelp icon, hover over for help text.
Averaged BaselineNo data providedHelp icon, hover over for help text.
Dichroism Units of Averaged Baseline DataNo data providedHelp icon, hover over for help text.
Net Smoothed Spectrum file   chartHelp icon, hover over for help text.
Dichroism Units of Net Smoothed DataDRS unitsHelp icon, hover over for help text.
Final Processed Spectrum file   chartHelp icon, hover over for help text.
Dichroism Units of Processed DataDelta EpsilonHelp icon, hover over for help text.

Experiment

PCDDBIDCD0000101000Help icon, hover over for help text.
CD or SRCDSRCDHelp icon, hover over for help text.
Protein Concentration (mg/ml)3.37Help icon, hover over for help text.
Concentration Quantification MethodExtinction CoefficientHelp icon, hover over for help text.
Protein Purity (%)No data providedHelp icon, hover over for help text.
Purity Quantification MethodNo data providedHelp icon, hover over for help text.
Buffer Contents and Concentrations1.2% OGHelp icon, hover over for help text.
Baseline Contents1.2% OGHelp icon, hover over for help text.
Experimental Temperature (C)4Help icon, hover over for help text.
Instrument or beamlineDaresbury 3.1Help icon, hover over for help text.
Detector Angle (Scattering Angle)No data providedHelp icon, hover over for help text.
Sample Cell Pathlength (cm)0.0013Help icon, hover over for help text.
Cell Pathlength Calibration MethodInterferometryHelp icon, hover over for help text.
Sample Cell TypeCylindrical-DemountableHelp icon, hover over for help text.
Sample Cell CompositionSuprasilHelp icon, hover over for help text.
Sample Chamber AtmosphereNitrogenHelp icon, hover over for help text.
Number of repeat scans2Help icon, hover over for help text.
Continuous or Stepped scanSteppedHelp icon, hover over for help text.
Maximum (highest) wavelength, nm280Help icon, hover over for help text.
Minimum (lowest) wavelength, nm173Help icon, hover over for help text.
Criteria for low wavelength cutoffHT valueHelp icon, hover over for help text.
Wavelength interval, nm0.2Help icon, hover over for help text.
Dwell or Averaging time, seconds3Help icon, hover over for help text.
Experimental Collection date2003-05-13Help icon, hover over for help text.
Local Spectrum Identifiert16122Help icon, hover over for help text.

Calibration

PCDDBIDCD0000101000Help icon, hover over for help text.
CSA or ACSCSAHelp icon, hover over for help text.
CSA/ACS Standard Spectrum file   chartHelp icon, hover over for help text.
Dichroism Units for CSA StandardDRS unitsHelp icon, hover over for help text.
Final Spectrum CalibratedYESHelp icon, hover over for help text.
CSA/ACS Standard Concentration (mg/ml)9.80Help icon, hover over for help text.
CSA/ACS Pathlength (mm)0.10Help icon, hover over for help text.
CSA/ACS Zeroed at-Help icon, hover over for help text.
CSA/ACS Date Measured2003-05-13Help icon, hover over for help text.
CSA/ACS Ratio (192.5nm and 290.0 nm)2.12Help icon, hover over for help text.
CD signal at 290nm (mdeg)348781Help icon, hover over for help text.
CSA/ACS Experiment temperature, C25Help icon, hover over for help text.

Data Process

PCDDBIDCD0000101000Help icon, hover over for help text.
Molecular Weight26915.6Help icon, hover over for help text.
Number of Residues249Help icon, hover over for help text.
Mean Residue Weight108.5Help icon, hover over for help text.
Data Processing Software NameCDToolHelp icon, hover over for help text.
Data Processing Software Version1.4Help icon, hover over for help text.
Number of Smoothing Points7Help icon, hover over for help text.
Wavelength Range for Zeroing263-270Help icon, hover over for help text.

Sec. Struct.

PCDDBIDCD0000101000Help icon, hover over for help text.
Secondary Structure Calculated fromCrystal structureHelp icon, hover over for help text.
DSSP value: alpha helix0.685Help icon, hover over for help text.
DSSP value: 3-10 helix0.012Help icon, hover over for help text.
DSSP value: pi helix0.000Help icon, hover over for help text.
DSSP value: beta strand0.048Help icon, hover over for help text.
DSSP value: beta bridge0.000Help icon, hover over for help text.
DSSP value: bonded turn0.085Help icon, hover over for help text.
DSSP value: bend0.032Help icon, hover over for help text.
DSSP value: loop or irregular0.137Help icon, hover over for help text.

Info.

PCDDBIDCD0000101000Help icon, hover over for help text.
PDB ID1qhj: RSCBpdb PDBj PDBeHelp icon, hover over for help text.
UniProt IDP02945 Help icon, hover over for help text.
Enzyme Classification (EC)-Help icon, hover over for help text.
Medline Entry21505036 (pubmed)Help icon, hover over for help text.
Cath Classification1.20.1070.10 Help icon, hover over for help text.
SequenceQAQITGRPEW IWLALGTALM GLGTLYFLVK GMGVSDPDAK KFYAITTLVP AIAFTMYLSM LLGYGLTMVP FGGEQNPIYW ARYADWLFTT PLLLLDLALL VDADQGTILA LVGADGIMIG TGLVGALTKV YSYRFVWWAI STAAMLYILY VLFFGFTSKA ESMRPEVAST FKVLRNVTVV LWSAYPVVWL IGSEGAGIVP LNIETLLFMV LDVSAKVGFG LILLRSRAIF GEAEAPEPSA GDGAAATSD Help icon, hover over for help text.
Type of proteinmembraneHelp icon, hover over for help text.
Keyword/phrase AMP180Help icon, hover over for help text.
Keyword/phrase BSMP180Help icon, hover over for help text.
Keyword/phrase Cmembrane proteinHelp icon, hover over for help text.
Keyword/phrase DNo data providedHelp icon, hover over for help text.
Keyword/phrase ENo data providedHelp icon, hover over for help text.
Keyword/phrase FNo data providedHelp icon, hover over for help text.
Keyword/phrase GNo data providedHelp icon, hover over for help text.
Keyword/phrase HNo data providedHelp icon, hover over for help text.
Keyword/phrase INo data providedHelp icon, hover over for help text.
Keyword/phrase JNo data providedHelp icon, hover over for help text.
Publication AuthorsAli Abdul-Gader, Andrew John Miles and B.A. WallaceHelp icon, hover over for help text.
Publication Year2011Help icon, hover over for help text.
Publication JournalBioinformaticsHelp icon, hover over for help text.
Publication TitleA Reference Dataset for the Analyses of Membrane Protein Sec-ondary Structures and Transmembrane Residues using Circular Dichroism SpectroscopyHelp icon, hover over for help text.
Publication Volume27Help icon, hover over for help text.
Publication Pages1630-1636Help icon, hover over for help text.
Citation PublicationNo data providedHelp icon, hover over for help text.

Depositor

PCDDBIDCD0000101000Help icon, hover over for help text.
Depositor NameAndrew MilesHelp icon, hover over for help text.
Department/School namecrystallographyHelp icon, hover over for help text.
University/Institution/CorporationBirkbeckHelp icon, hover over for help text.
Depositor CountryUnited KingdomHelp icon, hover over for help text.
Name of Principal Investigator (if not depositor)BA WallaceHelp icon, hover over for help text.

Validation

PCDDBID CD0000101000 Help icon, hover over for help text.
Missing Wavelengths PASS Help icon, hover over for help text.
Maximum Delta Epsilon PASS Help icon, hover over for help text.
Minimal Level of Maximum Delta Epsilon PASS Help icon, hover over for help text.
Peak Locations PASS Help icon, hover over for help text.
Feature Width PASS Help icon, hover over for help text.
Experimental Temperature PASS Help icon, hover over for help text.
UniProt sequence PASS Help icon, hover over for help text.
Molecular Weight PASS Help icon, hover over for help text.
Number of Residues PASS Help icon, hover over for help text.
Mean Residue Weight value PASS Help icon, hover over for help text.
Concentration and Pathlength PASS Help icon, hover over for help text.
CSA / ACS peak ratio PASS Help icon, hover over for help text.
CSA / ACS Temperature PASS Help icon, hover over for help text.
Peak Shift test INSUFFICIENT DATA Help icon, hover over for help text.
Standard Deviation INSUFFICIENT DATA Help icon, hover over for help text.
Noise: 260-270nm PASS Help icon, hover over for help text.
Flat topped peaks PASS Help icon, hover over for help text.
Wavelength range PASS Help icon, hover over for help text.
Interval resolution PASS Help icon, hover over for help text.
High Tension Voltage 240-260nm PASS Help icon, hover over for help text.
Projection Test FLAG Help icon, hover over for help text.
Standard Deviation At Peak INSUFFICIENT DATA Help icon, hover over for help text.
Overall validation level is: FLAG
Validation report compiled by Validichro v1.2.5, 2011-08-19, 10:26am.
Depositor comment for validation report : Standard deviation and Standard deviation at peak: test cannot be carried out because no raw data available. projection test: flagged because it is an unusual spectrum
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