View & Download CD data for CD0004555000
Bovine Collagen Type II (collagen alpha-1(ii) chain)
Citation: Jose L.S. Lopes, Andrew J. Miles, Lee Whitmore, B.A. Wallace 2014 Protein Science 23 1765-1772
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 |
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| Raw Sample Spectra | ---- Please select ---- | Download |
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| Raw Baseline Spectra | ---- Please select ---- | Download |
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| Average Sample | ---- Please select ---- | Download |
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| Averaged Baseline | ---- Please select ---- | Download |
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| HT / High Voltage / Dynode Spectra | HT/Dynode Units | Download |
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| Net Smoothed Spectrum | ---- Please select ---- | Download |
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| Final Processed Spectrum | Delta Epsilon | Download |
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Validation report compiled by Validichro v1.3.0, 2014-12-16, 3:23pm. - PASS (Incomplete)
At a glance
| Downloads | 1329 |
| Depositor | Jose Lopes |
| Uniprot |
P02459 |
| Alpha Fold | |
| PDB |
|
| EC | |
| CATH Class | |
| Protein Type | soluble fibrous |
Sample
| Protein Name | bovine collagen type II | ? |
| Alternative Protein Names | Collagen alpha-1(II) chain | ? |
| Source Organism | Bos taurus | ? |
| Protein Supplier | MD Bioproducts, USA | ? |
| Expression System or natural source | purified from fetal bovine articular cartilage | ? |
| Expressed As | Wild-type | ? |
| Mutation Details | No data provided | ? |
| Expression tags (if any) | No data provided | ? |
| Ligands Present and Concentration or ratio | no ligands | ? |
| Macromolecular Partner(s) and Concentration or ratio | no partner | ? |
| Deposition Date | 2014-12-19 | ? |
Experiment
| CD or SRCD | SRCD | ? |
| Protein Concentration (mg/ml) | 1 | ? |
| Concentration Quantification Method | Nanodrop | ? |
| Protein Purity (%) | No data provided | ? |
| Purity Quantification Method | No data provided | ? |
| Buffer Contents and Concentrations | water | ? |
| Baseline Contents | water | ? |
| Experimental Temperature (C) | 85 | ? |
| Instrument or beamline | ISA CD1 | ? |
| Detector Angle (Scattering Angle) | No data provided | ? |
| Sample Cell Pathlength (cm) | 0.01 | ? |
| Cell Pathlength Calibration Method | Interferometry | ? |
| Sample Cell Type | Cylindrical | ? |
| Sample Cell Composition | Quartz | ? |
| Sample Chamber Atmosphere | Nitrogen | ? |
| Number of repeat scans | 3 | ? |
| Continuous or Stepped scan | Stepped | ? |
| Maximum (highest) wavelength, nm | 270 | ? |
| Minimum (lowest) wavelength, nm | 175 | ? |
| Criteria for low wavelength cutoff | HT value | ? |
| Wavelength interval, nm | 1 | ? |
| Dwell or Averaging time, seconds | No data provided | ? |
| Experimental Collection date | 2013-10-13 | ? |
| Local Spectrum Identifier | a36166 | ? |
Calibration
| CSA or ACS | CSA | ? |
| Dichroism Units for CSA Standard | Millidegrees (theta) | ? |
| Final Spectrum Calibrated | YES | ? |
| CSA/ACS Standard Concentration (mg/ml) | 7.25 | ? |
| CSA/ACS Pathlength (mm) | No data provided | ? |
| CSA/ACS Zeroed at | No data provided | ? |
| CSA/ACS Date Measured | 2013-10-13 | ? |
| 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 | 25 | ? |
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 | P02459 | ? |
| Enzyme Classification (EC) | No data provided | ? |
| Medline Entry | No data provided | ? |
| Cath Classification | No data provided | ? |
| Sequence | QMAGGFDEKA GGAQMGVMQG PMGPMGPRGP PGPAGAPGPQ GFQGNPGEPG EPGVSGPMGP RGPPGPPGKP GDDGEAGKPG KSGERGPPGP QGARGFPGTP GLPGVKGHRG YPGLDGAKGE AGAPGVKGES GSPGENGSPG PMGPRGLPGE RGRTGPAGAA GARGNDGQPG PAGPPGPVGP AGGPGFPGAP GAKGEAGPTG ARGPEGAQGP RGEPGTPGSP GPAGAAGNPG TDGIPGAKGS AGAPGIAGAP GFPGPRGPPG PQGATGPLGP KGQTGEPGIA GFKGEQGPKG EPGPAGPQGA PGPAGEEGKR GARGEPGGAG PAGPPGERGA PGNRGFPGQD GLAGPKGAPG ERGPSGLAGP KGANGDPGRP GEPGLPGARG LTGRPGDAGP QGKVGPSGAP GEDGRPGPPG PQGARGQPGV MGFPGPKGAN GEPGKAGEKG LPGAPGLRGL PGKDGETGAA GPPGPAGPAG ERGEQGAPGP SGFQGLPGPP GPPGEGGKPG DQGVPGEAGA PGLVGPRGER GFPGERGSPG SQGLQGARGL PGTPGTDGPK GAAGPAGPPG AQGPPGLQGM PGERGAAGIA GPKGDRGDVG EKGPEGAPGK DGGRGLTGPI GPPGPAGANG EKGEVGPPGP AGTAGARGAP GERGETGPPG PAGFAGPPGA DGQPGAKGEQ GEAGQKGDAG APGPQGPSGA PGPQGPTGVT GPKGARGAQG PPGATGFPGA AGRVGPPGSN GNPGPPGPPG PSGKDGPKGA RGDSGPPGRA GDPGLQGPAG PPGEKGEPGD DGPSGPDGPP GPQGLAGQRG IVGLPGQRGE RGFPGLPGPS GEPGKQGAPG ASGDRGPPGP VGPPGLTGPA GEPGREGSPG ADGPPGRDGA AGVKGDRGET GAVGAPGAPG PPGSPGPAGP IGKQGDRGEA GAQGPMGPAG PAGARGMPGP QGPRGDKGET GEAGERGLKG HRGFTGLQGL PGPPGPSGDQ GASGPAGPSG PRGPPGPVGP SGKDGANGIP GPIGPPGPRG RSGETGPAGP PGNPGPPGPP GPPGPGIDMS AFAGLGQREK GPDPLQYMRA DEAAGNLRQH DAEVDATLKS LNNQIESLRS PEGSRKNPAR TCRDLKLCHP EWKSGDYWID PNQGCTLDAM KVFCNMETGE TCVYPNPASV PKKNWWSSKS KDKKHIWFGE TINGGFHFSY GDDNLAPNTA NVQMTFLRLL STEGSQNITY HCKNSIAYLD EAAGNLKKAL LIQGSNDVEI RAEGNSRFTY TVLKDGCTKH TGKWGKTMIE YRSQKTSRLP IIDIAPMDIG GPEQEFGVDI GPVCFL | ? |
| Type of protein | soluble fibrous | ? |
| Keyword/phrase A | Collagen alpha-1(II) chain | ? |
| Keyword/phrase B | collagen | ? |
| Keyword/phrase C | type II collagen | ? |
| 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 | Jose L.S. Lopes, Andrew J. Miles, Lee Whitmore, B.A. Wallace | ? |
| Publication Year | 2014 | ? |
| Publication Journal | Protein Science | ? |
| Publication Title | Distinct circular dichroism spectroscopic signatures of polyproline II and unordered secondary structures: Applications in secondary structure analyses. | ? |
| Publication Volume | 23 | ? |
| Publication Pages | 1765-1772 | ? |
Validation report compiled by Validichro v1.3.0, 2014-12-16, 3:23pm. - 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 | INSUFFICIENT DATA | ? |
| Molecular Weight | PASS | ? |
| Number of Residues | PASS | ? |
| Mean Residue Weight value | PASS | ? |
| Concentration and Pathlength | PASS | ? |
| CSA / ACS peak ratio | calculation failed | ? |
| CSA / ACS Temperature | PASS | ? |
| 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 | ? |