View & Download CD data for CD0006401001
High Mobility Group Protein B1 (hmg-1)
Citation: Martin A. Mensah, Henri Niskanen, Alexandre P. Magalhaes, Shaon Basu, Martin Kircher, Henrike L. Sczakiel, Alisa M. V. Reiter, Jonas Elsner, Peter Meinecke, Saskia Biskup, Brian H. Y. Chung, Gregor Dombrowsky, Christel Eckmann-Scholz, Marc Phillip Hitz, Paul-Martin Holterhus, Wiebke Hülsemann, Kimia Kahrizi, Vera M. Kalscheuer, Anita Kan, Mandy Krumbiegel, Ingo Kurth, Jonas Leubner, Ann Carolin Longardt, Jörg D. Moritz, Hossein Najmabadi, Karolina Skipalova, Andreas Tzschach, Eberhard Wiedersberg, Martin Zenker, Carla Garcia-Cabau, René Buschow, Xavier Salvatella, Matthew L. Kraushar, Stefan Mundlos, Almuth Caliebe, Malte Spielmann, Denise Horn, Denes Hnisz
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 | Millidegrees_(theta) | Download |
View Plot |
| HT / High Voltage / Dynode Spectra | HT/Dynode Units | Download |
View Plot |
| Net Smoothed Spectrum | Download |
File not provided | |
| Final Processed Spectrum | Mean_Residue_Ellipticity | Download |
View Plot |
Validation report compiled by Validichro v1.4.0.1, 2022-06-29 11:39:50. - PASS (incomplete)
| Downloads | 721 |
| Depositor | Carla Garcia-Cabau |
| Uniprot |
P09429 |
| Alpha Fold | |
| PDB |
|
| EC | |
| CATH Class | 1:10:30:10 |
| Protein Type | peptide |
Sample
| Protein Name | High mobility group protein B1 | ? |
| Alternative Protein Names | HMG-1 | ? |
| Source Organism | Human | ? |
| Protein Supplier | ProteoGenix | ? |
| Expression System or natural source | Synthetic peptide | ? |
| 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 | 2022-06-17 | ? |
Experiment
| CD or SRCD | CD | ? |
| Protein Concentration (mg/ml) | 0.100 | ? |
| Concentration Quantification Method | Amino acid analysis | ? |
| Protein Purity (%) | 90 | ? |
| Purity Quantification Method | Supplier value | ? |
| Buffer Contents and Concentrations | 20 mM sodium phosphate, 2.5% (v/v) 2,2,2-Trifluoroethanol, pH 7.4 | ? |
| Baseline Contents | 20 mM sodium phosphate, 2.5% (v/v) 2,2,2-Trifluoroethanol, pH 7.4 | ? |
| Experimental Temperature (C) | 5 | ? |
| Instrument or beamline | Jasco | ? |
| Detector Angle (Scattering Angle) | No data provided | ? |
| Sample Cell Pathlength (cm) | 0.1 | ? |
| Cell Pathlength Calibration Method | Manufacturers Spec. | ? |
| Sample Cell Type | Rectangular | ? |
| Sample Cell Composition | Quartz | ? |
| Sample Chamber Atmosphere | Nitrogen | ? |
| Number of repeat scans | 20 | ? |
| Continuous or Stepped scan | Continuous | ? |
| Maximum (highest) wavelength, nm | 260 | ? |
| Minimum (lowest) wavelength, nm | 180 | ? |
| Criteria for low wavelength cutoff | HT value | ? |
| Wavelength interval, nm | 0.2 | ? |
| Dwell or Averaging time, seconds | 1 | ? |
| Experimental Collection date | 2022-01-27 | ? |
| Local Spectrum Identifier | No data provided | ? |
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 | 2022-06-18 | ? |
| 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 | 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 | ? |
Tertiary
| PDB ID | No data provided | ? |
| UniProt ID | P09429 | ? |
| Enzyme Classification (EC) | No data provided | ? |
| Medline Entry | No data provided | ? |
| Cath Classification | 1:10:30:10 | ? |
| Sequence | NTAADDKQPY EKKAAKLKEK YEKDIAAYRA KGKPDAAKKG VVKAEKSKKK KEEEEDEEDE EDEEEEEDEE DEDEEEDDDD E | ? |
| Type of protein | peptide | ? |
| Keyword/phrase A | HMGB1 C-terminal sequence starting from Asn135 | ? |
| 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 | Martin A. Mensah, Henri Niskanen, Alexandre P. Magalhaes, Shaon Basu, Martin Kircher, Henrike L. Sczakiel, Alisa M. V. Reiter, Jonas Elsner, Peter Meinecke, Saskia Biskup, Brian H. Y. Chung, Gregor Dombrowsky, Christel Eckmann-Scholz, Marc Phillip Hitz, Paul-Martin Holterhus, Wiebke Hülsemann, Kimia Kahrizi, Vera M. Kalscheuer, Anita Kan, Mandy Krumbiegel, Ingo Kurth, Jonas Leubner, Ann Carolin Longardt, Jörg D. Moritz, Hossein Najmabadi, Karolina Skipalova, Andreas Tzschach, Eberhard Wiedersberg, Martin Zenker, Carla Garcia-Cabau, René Buschow, Xavier Salvatella, Matthew L. Kraushar, Stefan Mundlos, Almuth Caliebe, Malte Spielmann, Denise Horn, Denes Hnisz | ? |
| Publication Year | No data provided | ? |
| Publication Journal | No data provided | ? |
| Publication Title | Disruption of nucleolar phase separation in human genetic disease | ? |
| Publication Volume | No data provided | ? |
| Publication Pages | No data provided | ? |
Validation report compiled by Validichro v1.4.0.1, 2022-06-29 11:39:50. - PASS (incomplete)
Depositors Notes:
| Missing Wavelengths | PASS | ? |
| Maximum Delta Epsilon | INSUFFICIENT DATA | ? |
| 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 | INSUFFICIENT DATA | ? |
| Flat topped peaks | PASS | ? |
| Wavelength range | PASS | ? |
| Interval resolution | PASS | ? |
| High Tension Voltage 240-260nm | PASS | ? |
| Projection Test | PASS | ? |
| Standard Deviation At Peak | INSUFFICIENT DATA | ? |
| Depositor Note | ? |