+Open data
-Basic information
Entry | Database: PDB / ID: 5ix9 | ||||||
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Title | Cell surface anchoring domain | ||||||
Components | Antifreeze protein | ||||||
Keywords | Antifreeze protein / Cell adhesion / biofilm-associated protein / ice-binding protein | ||||||
Function / homology | Immunoglobulin-like fold / Antifreeze protein Function and homology information | ||||||
Biological species | Marinomonas primoryensis (bacteria) | ||||||
Method | SOLUTION NMR / na | ||||||
Authors | Guo, S. / Langelaan, D. | ||||||
Funding support | Canada, 1items
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Citation | Journal: Sci Adv / Year: 2017 Title: Structure of a 1.5-MDa adhesin that binds its Antarctic bacterium to diatoms and ice. Authors: Guo, S. / Stevens, C.A. / Vance, T.D.R. / Olijve, L.L.C. / Graham, L.A. / Campbell, R.L. / Yazdi, S.R. / Escobedo, C. / Bar-Dolev, M. / Yashunsky, V. / Braslavsky, I. / Langelaan, D.N. / ...Authors: Guo, S. / Stevens, C.A. / Vance, T.D.R. / Olijve, L.L.C. / Graham, L.A. / Campbell, R.L. / Yazdi, S.R. / Escobedo, C. / Bar-Dolev, M. / Yashunsky, V. / Braslavsky, I. / Langelaan, D.N. / Smith, S.P. / Allingham, J.S. / Voets, I.K. / Davies, P.L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5ix9.cif.gz | 469.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5ix9.ent.gz | 400.4 KB | Display | PDB format |
PDBx/mmJSON format | 5ix9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ix/5ix9 ftp://data.pdbj.org/pub/pdb/validation_reports/ix/5ix9 | HTTPS FTP |
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-Related structure data
Related structure data | 5irbC 5j6yC 5juhC 5k8gC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 20594.082 Da / Num. of mol.: 1 / Fragment: residues 12-187 / Mutation: D31N Source method: isolated from a genetically manipulated source Source: (gene. exp.) Marinomonas primoryensis (bacteria) / Production host: Escherichia coli (E. coli) / References: UniProt: A1YIY2 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 20 mM TRIS, 50 mM sodium chloride, 2 mM CaCl2, 2 mM MgCl2, 3 mM 13C MpAFP_RINM, 90% H2O/10% D2O Label: 15N and 13C / Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 50 mM / Label: conditions_1 / pH: 6.5 / Pressure: 1 atm / Temperature: 30 C |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: na / Software ordinal: 2 | ||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 20 / Conformers submitted total number: 20 |