A0L5S6 (navms pore)

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Citation: McCusker, E.C., Bagnris, C., Naylor, C.E., Cole, A.R., D'Avanzo, N., Nichols, C.G., and Wallace, B.A. 2012

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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)

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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 v1.2.5, 2012-08-17, 12:01pm. - FLAG

Downloads	1492
Depositor	Emily McCusker
Uniprot	A0L5S6
Alpha Fold
PDB	4f4l
EC
CATH Class
Protein Type	membrane

Sample
Experiment
Calibration
Data Process.
Sec. Struct.
Tertiary
Depositor
Validation

Protein Name	A0L5S6	?
Alternative Protein Names	NavMs pore	?
Source Organism	Magnetococcus sp. (strain MC-1)	?
Protein Supplier	E. McCusker, Wallace Laboratory, Birkbeck College	?
Expression System or natural source	E. coli	?
Expressed As	Mutant (deletions)	?
Mutation Details	deletion of voltage sensing domain and truncation of C-terminal domain	?
Expression tags (if any)	N,MGSSHHHHHHSSG	?
Ligands Present and Concentration or ratio	No data provided	?
Macromolecular Partner(s) and Concentration or ratio	No data provided	?
Deposition Date	2012-08-17	?

CD or SRCD	CD	?
Protein Concentration (mg/ml)	0.817	?
Concentration Quantification Method	Nanodrop	?
Protein Purity (%)	>95%	?
Purity Quantification Method	SDS gels	?
Buffer Contents and Concentrations	10mM Tris-HCl, pH 7.4, 100mM NaCl, 0.2% Decyl maltoside	?
Baseline Contents	10mM Tris-HCl, pH 7.4, 100mM NaCl, 0.2% Decyl maltoside	?
Experimental Temperature (C)	25	?
Instrument or beamline	Aviv	?
Detector Angle (Scattering Angle)	No data provided	?
Sample Cell Pathlength (cm)	0.01	?
Cell Pathlength Calibration Method	Manufacturers Spec.	?
Sample Cell Type	Rectangular-Demountable	?
Sample Cell Composition	Quartz	?
Sample Chamber Atmosphere	Nitrogen	?
Number of repeat scans	1	?
Continuous or Stepped scan	Stepped	?
Maximum (highest) wavelength, nm	260	?
Minimum (lowest) wavelength, nm	185	?
Criteria for low wavelength cutoff	HT value	?
Wavelength interval, nm	1	?
Dwell or Averaging time, seconds	1	?
Experimental Collection date	2009-01-13	?
Local Spectrum Identifier	No data provided	?

CSA or ACS	CSA	?
Dichroism Units for CSA Standard	Millidegrees (theta)	?
Final Spectrum Calibrated	YES	?
CSA/ACS Standard Concentration (mg/ml)	6.6	?
CSA/ACS Pathlength (mm)	0.1	?
CSA/ACS Zeroed at	235-245	?
CSA/ACS Date Measured	2009-07-07	?
CSA/ACS Ratio (192.5nm and 290.0 nm)	2.07	?
CD signal at 290nm (mdeg)	23.95	?
CSA/ACS Experiment temperature, C	25	?

Molecular Weight	14314	?
Number of Residues	129	?
Mean Residue Weight	110.96	?
Data Processing Software Name	CDTool	?
Data Processing Software Version	1.4	?
Wavelength Range for Zeroing	255-260	?
Number of Smoothing Points	7	?

Secondary Structure Calculated from	No data provided	?
DSSP value: alpha helix	No data provided	?
DSSP value: 3-10 helix	No data provided	?
DSSP value: pi helix	No data provided	?
DSSP value: beta strand	No data provided	?
DSSP value: beta bridge	No data provided	?
DSSP value: bonded turn	No data provided	?
DSSP value: bend	No data provided	?
DSSP value: loop or irregular	No data provided	?

PDB ID	4f4l	?
UniProt ID	A0L5S6	?
Enzyme Classification (EC)	No data provided	?
Medline Entry	No data provided	?
Cath Classification	No data provided	?
Sequence	MGSSHHHHHH SSGLVPRGSH MGVGSVAALL TVVFYIAAVM ATNLYGATFP EWFGDLSKSL YTLFQVMTLE SWSMGIVRPV MNVHPNAWVF FIPFIMLTTF TVLNLFIGII VDAMAITKEQ EEEAKTGHH	?
Type of protein	membrane	?
Keyword/phrase A	NavMs	?
Keyword/phrase B	No data provided	?
Keyword/phrase C	No data provided	?
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	McCusker, E.C., Bagnris, C., Naylor, C.E., Cole, A.R., D'Avanzo, N., Nichols, C.G., and Wallace, B.A.	?
Publication Year	2012	?
Publication Journal	No data provided	?
Publication Title	Structure of a Bacterial Voltage-Gated Sodium Channel Pore Reveals Mechanisms of Opening and Closing	?
Publication Volume	No data provided	?
Publication Pages	No data provided	?

Depositor Name	Emily McCusker	?
Department/School name	Biochemistry and Biophysics	?
University/Institution/Corporation	UCSF	?
Depositor Country	United States	?
Name of Principal Investigator (if not depositor)	Professor BA Wallace	?

Depositors Notes: Uniprot sequence is flagged because the protein lacks the voltage sensor domain and the C terminal sequence. Standard deviation is flagged because the raw spectra contain data below the HT cutoff whi

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	FLAG	?
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	FLAG	?
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	Uniprot sequence is flagged because the protein lacks the voltage sensor domain and the C terminal sequence. Standard deviation is flagged because the raw spectra contain data below the HT cutoff whi	?