View & Download CD data for CD0006255007
Ion Transport Protein (navms volatage-gated -sodium-channel)
Citation: Sam M. Ireland, Altin Sula, B.A. Wallace 2017 Biopolymers 109 23067
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) | File not provided | |
| Raw Sample Spectra | File not provided | ||
| Raw Baseline Spectra | File not provided | ||
| Average Sample | File not provided | ||
| Averaged Baseline | File not provided | ||
| HT / High Voltage / Dynode Spectra | HT/Dynode Units | File not provided | |
| Net Smoothed Spectrum | File not provided | ||
| Final Processed Spectrum | Delta_Epsilon | Download |
View Plot |
Validation report compiled by Validichro v1.4.0.1, 2020-12-01 12:00:44. - PASS (incomplete)
| Downloads | 597 |
| Depositor | Andrew Miles |
| Uniprot |
A0L5S6 |
| Alpha Fold | |
| PDB |
5HVD 5HVX |
| EC | |
| CATH Class | |
| Protein Type | membrane |
Sample
| Protein Name | Ion transport protein | ? |
| Alternative Protein Names | NavMs volatage-gated -sodium-channel | ? |
| Source Organism | Magnetococcus marinus | ? |
| Protein Supplier | aurhors | ? |
| Expression System or natural source | C41(DE3) cells | ? |
| 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 | 2020-08-17 | ? |
Experiment
| CD or SRCD | CD | ? |
| Protein Concentration (mg/ml) | 1.005 | ? |
| Concentration Quantification Method | Nanodrop | ? |
| Protein Purity (%) | No data provided | ? |
| Purity Quantification Method | No data provided | ? |
| Buffer Contents and Concentrations | 20 mM Tris, pH 7.5, 100 mM NaF, 8% glycerol, 0.3% cymal5 | ? |
| Baseline Contents | 20 mM Tris, pH 7.5, 100 mM NaF, 8% glycerol, 0.3% cymal5 | ? |
| Experimental Temperature (C) | 55 | ? |
| Instrument or beamline | Aviv | ? |
| Detector Angle (Scattering Angle) | No data provided | ? |
| Sample Cell Pathlength (cm) | 0.0093 | ? |
| Cell Pathlength Calibration Method | Interferometry | ? |
| Sample Cell Type | Cylindrical | ? |
| 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 | 188 | ? |
| Criteria for low wavelength cutoff | HT value | ? |
| Wavelength interval, nm | 1 | ? |
| Dwell or Averaging time, seconds | 1 | ? |
| Experimental Collection date | 2017-03-29 | ? |
| Local Spectrum Identifier | Nav-Cymal5-55 | ? |
Calibration
| CSA or ACS | CSA | ? |
| Dichroism Units for CSA Standard | Millidegrees_(theta) | ? |
| Final Spectrum Calibrated | NO | ? |
| CSA/ACS Standard Concentration (mg/ml) | No data provided | ? |
| CSA/ACS Pathlength (mm) | No data provided | ? |
| CSA/ACS Zeroed at | No data provided | ? |
| CSA/ACS Date Measured | No data provided | ? |
| CSA/ACS Ratio (192.5nm and 290.0 nm) | No data provided | ? |
| CD signal at 290nm (mdeg) | No data provided | ? |
| CSA/ACS Experiment temperature, C | No data provided | ? |
Sec. struct.
| Secondary Structure Calculated from | Xtal structure | ? |
| DSSP value: alpha helix | 68.0 | ? |
| DSSP value: 3-10 helix | 3.3 | ? |
| DSSP value: pi helix | 1.8 | ? |
| DSSP value: beta strand | No data provided | ? |
| DSSP value: beta bridge | No data provided | ? |
| DSSP value: bonded turn | 6.9 | ? |
| DSSP value: bend | 6.2 | ? |
| DSSP value: loop or irregular | 13.8 | ? |
Tertiary
| PDB ID | 5HVD, 5HVX | ? |
| UniProt ID | A0L5S6 | ? |
| Enzyme Classification (EC) | No data provided | ? |
| Medline Entry | No data provided | ? |
| Cath Classification | No data provided | ? |
| Sequence | GSHMSRKIRD LIESKRFQNV ITAIIVLNGA VLGLLTDTTL SASSQNLLER VDQLCLTIFI VEISLKIYAY GVRGFFRSGW NLFDFVIVAI ALMPAQGSLS VLRTFRIFRV MRLVSVIPTM RRVVQGMLLA LPGVGSVAAL LTVVFYIAAV MATNLYGATF PEWFGDLSKS LYTLFQVMTL ESWSMGIVRP VMNVHPNAWV FFIPFIMLTT FTVLNLFIGI IVDAMAITKE QEEEAKTGHH QEPISQTLLH LGDRLDRIEK QLAQNNELLQ RQQPQKK | ? |
| Type of protein | membrane | ? |
| Keyword/phrase A | sodium channel | ? |
| Keyword/phrase B | thermal melt | ? |
| 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 | Sam M. Ireland, Altin Sula, B.A. Wallace | ? |
| Publication Year | 2017 | ? |
| Publication Journal | Biopolymers | ? |
| Publication Title | Thermal melt circular dichroism spectroscopic studies for identifying stabilising amphipathic molecules for the voltagegated sodium channel NavMs | ? |
| Publication Volume | 109 | ? |
| Publication Pages | 23067 | ? |
Validation report compiled by Validichro v1.4.0.1, 2020-12-01 12:00:44. - PASS (incomplete)
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 | INSUFFICIENT DATA | ? |
| CSA / ACS Temperature | INSUFFICIENT DATA | ? |
| Peak Shift test | PASS | ? |
| Standard Deviation | INSUFFICIENT DATA | ? |
| Noise: 260-270nm | PASS | ? |
| Flat topped peaks | PASS | ? |
| Wavelength range | PASS | ? |
| Interval resolution | PASS | ? |
| High Tension Voltage 240-260nm | INSUFFICIENT DATA | ? |
| Projection Test | PASS | ? |
| Standard Deviation At Peak | INSUFFICIENT DATA | ? |
| Depositor Note | ? |