Pyruvate Kinase (pkm2)

Citation: Miles, A.J., Whitmore, L., Janes, R.W. & Wallace, B.A. 2014 Scientific data

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	Millidegrees \(theta\)	Download	View Plot
Raw Sample Spectra	Millidegrees (theta)	Download	View Plot
Raw Sample Spectra 2	Millidegrees (theta)	Download	View Plot
Raw Sample Spectra 3	Millidegrees (theta)	Download	View Plot
Raw Baseline Spectra	Millidegrees (theta)	Download	View Plot
Raw Baseline Spectra 2	Millidegrees (theta)	Download	View Plot
Raw Baseline Spectra 3	Millidegrees (theta)	Download	View Plot
Average Sample	Millidegrees (theta)	Download	View Plot
Averaged Baseline	Millidegrees (theta)	Download	View Plot
HT / High Voltage / Dynode Spectra	HT/Dynode Units	Download	View Plot
HT / High Voltage / Dynode Spectra 2	HT/Dynode Units	Download	View Plot
HT / High Voltage / Dynode Spectra 3	HT/Dynode Units	Download	View Plot
Net Smoothed Spectrum	Millidegrees (theta)	Download	View Plot
Final Processed Spectrum	Delta Epsilon	Download	View Plot

Validation report compiled by Validichro v1.4.0.1, 2022-09-27 11:01:23. - PASS

At a glance

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Sample

Protein Name	Pyruvate kinase	?
Alternative Protein Names	PKM2	?
Source Organism	Oryctolagus cuniculus	?
Protein Supplier	Sigma Aldrich	?
Expression System or natural source	natural source	?
Expressed As	Wild-type	?
Mutation Details	No data provided	?
Expression tags (if any)	No data provided	?
Ligands Present and Concentration or ratio	No data provided	?
Macromolecular Partner(s) and Concentration or ratio	No data provided	?
Deposition Date	2014-03-26	?

Experiment

CD or SRCD	SRCD	?
Protein Concentration (mg/ml)	1.58	?
Concentration Quantification Method	Nanodrop	?
Protein Purity (%)	>95	?
Purity Quantification Method	SDS gels	?
Buffer Contents and Concentrations	H2O	?
Baseline Contents	H2O	?
Experimental Temperature (C)	4	?
Instrument or beamline	ISA CD1	?
Detector Angle (Scattering Angle)	No data provided	?
Sample Cell Pathlength (cm)	0.005	?
Cell Pathlength Calibration Method	Interferometry	?
Sample Cell Type	Rectangular-Demountable	?
Sample Cell Composition	Suprasil	?
Sample Chamber Atmosphere	Nitrogen	?
Number of repeat scans	3	?
Continuous or Stepped scan	Stepped	?
Maximum (highest) wavelength, nm	280	?
Minimum (lowest) wavelength, nm	175	?
Criteria for low wavelength cutoff	HT value	?
Wavelength interval, nm	1	?
Dwell or Averaging time, seconds	2	?
Experimental Collection date	2011-03-12	?
Local Spectrum Identifier	A21825	?

Calibration

CSA or ACS	CSA	?
Dichroism Units for CSA Standard	Millidegrees \(theta\)	?
Final Spectrum Calibrated	YES	?
CSA/ACS Standard Concentration (mg/ml)	5.84	?
CSA/ACS Pathlength (mm)	0.1	?
CSA/ACS Zeroed at	235-245	?
CSA/ACS Date Measured	2011-03-12	?
CSA/ACS Ratio (192.5nm and 290.0 nm)	2.05	?
CD signal at 290nm (mdeg)	20.06	?
CSA/ACS Experiment temperature, C	25	?

Data process.

Molecular Weight	57918	?
Number of Residues	530	?
Mean Residue Weight	109.5	?
Data Processing Software Name	CDTool	?
Data Processing Software Version	1.4	?
Wavelength Range for Zeroing	263-267	?
Number of Smoothing Points	7	?

Sec. struct.

Secondary Structure Calculated from	PDB file	?
DSSP value: alpha helix	0.345	?
DSSP value: 3-10 helix	0.042	?
DSSP value: pi helix	0.000	?
DSSP value: beta strand	0.181	?
DSSP value: beta bridge	0.013	?
DSSP value: bonded turn	0.113	?
DSSP value: bend	0.111	?
DSSP value: loop or irregular	0.194	?

Tertiary

PDB ID	1a49	?
UniProt ID	P11974	?
Enzyme Classification (EC)	2.7.1.40	?
Medline Entry	No data provided	?
Cath Classification	3.40.1380.20 3.20.20.60 2.40.33.10	?
Sequence	SKSHSEAGSA FIQTQQLHAA MADTFLEHMC RLDIDSAPIT ARNTGIICTI GPASRSVETL KEMIKSGMNV ARMNFSHGTH EYHAETIKNV RTATESFASD PILYRPVAVA LDTKGPEIRT GLIKGSGTAE VELKKGATLK ITLDNAYMEK CDENILWLDY KNICKVVDVG SKVYVDDGLI SLQVKQKGPD FLVTEVENGG FLGSKKGVNL PGAAVDLPAV SEKDIQDLKF GVEQDVDMVF ASFIRKAADV HEVRKILGEK GKNIKIISKI ENHEGVRRFD EILEASDGIM VARGDLGIEI PAEKVFLAQK MIIGRCNRAG KPVICATQML ESMIKKPRPT RAEGSDVANA VLDGADCIML SGETAKGDYP LEAVRMQHLI AREAEAAMFH RKLFEELARS SSHSTDLMEA MAMGSVEASY KCLAAALIVL TESGRSAHQV ARYRPRAPII AVTRNHQTAR QAHLYRGIFP VVCKDPVQEA WAEDVDLRVN LAMNVGKARG FFKKGDVVIV LTGWRPGSGF TNTMRVVPVP	?
Type of protein	soluble globular	?
Keyword/phrase A	SP175a	?
Keyword/phrase B	multi domain type	?
Keyword/phrase C	mixed alpha beta	?
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	Miles, A.J., Whitmore, L., Janes, R.W. & Wallace, B.A.	?
Publication Year	2014	?
Publication Journal	Scientific data	?
Publication Title	A "Gold Standard" Reference Dataset for Protein Circular Dichroism Spectral and Meta-Data	?
Publication Volume	No data provided	?
Publication Pages	No data provided	?

Depositor

Depositor Name	Andrew Miles	?
Department/School name	crystallography	?
University/Institution/Corporation	Birkbeck	?
Depositor Country	United Kingdom	?
Name of Principal Investigator (if not depositor)	B.A. Wallace	?

Validation report compiled by Validichro v1.4.0.1, 2022-09-27 11:01:23. - PASS

Depositors Notes:

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		?
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		?