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Yorodumi- PDB-1xu6: Structure of the C-terminal domain from Trypanosoma brucei Varian... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1xu6 | ||||||
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Title | Structure of the C-terminal domain from Trypanosoma brucei Variant Surface Glycoprotein MITat1.2 | ||||||
Components | Variant surface glycoprotein MITAT 1.2 | ||||||
Keywords | IMMUNE SYSTEM / MEMBRANE PROTEIN / cysteine knot | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Trypanosoma (eukaryote) | ||||||
Method | SOLUTION NMR / TORSION ANGLE DYNAMICS, SIMULATED ANNEALING | ||||||
Authors | Chattopadhyay, A. / Jones, N.G. / Nietlispach, D. / Nielsen, P.R. / Voorheis, H.P. / Mott, H.R. / Carrington, M. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2004 Title: Structure of the C-terminal domain from Trypanosoma brucei variant surface glycoprotein MITat1.2 Authors: Chattopadhyay, A. / Jones, N.G. / Nietlispach, D. / Nielsen, P.R. / Voorheis, H.P. / Mott, H.R. / Carrington, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1xu6.cif.gz | 1.3 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1xu6.ent.gz | 1.2 MB | Display | PDB format |
PDBx/mmJSON format | 1xu6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xu/1xu6 ftp://data.pdbj.org/pub/pdb/validation_reports/xu/1xu6 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8750.559 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Trypanosoma (eukaryote) / Species: Trypanosoma brucei / Strain: brucei / Plasmid: pET15b / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 TrxB / References: UniProt: P26332 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1MM 15N-LABELLED C-TERMINAL DOMAIN OF MITAT1.2, 50MM SODIUM PHOSPHATE, PH 6.5, 100MM SODIUM CHLORIDE, 0.05% SODIUM AZIDE, 90% H2O, 10% D2O; 1MM 15N,13C-LABELLED C- TERMINAL DOMAIN OF MITAT1. ...Contents: 1MM 15N-LABELLED C-TERMINAL DOMAIN OF MITAT1.2, 50MM SODIUM PHOSPHATE, PH 6.5, 100MM SODIUM CHLORIDE, 0.05% SODIUM AZIDE, 90% H2O, 10% D2O; 1MM 15N,13C-LABELLED C- TERMINAL DOMAIN OF MITAT1.2, 50MM SODIUM PHOSPHATE, PH 6.5, 100MM SODIUM CHLORIDE, 0.05% SODIUM AZIDE, 90% H2O, 10% D2O |
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Sample conditions | pH: 6.5 / Pressure: 1 ATMOSPHERE ATM / Temperature: 298 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: TORSION ANGLE DYNAMICS, SIMULATED ANNEALING / Software ordinal: 1 Details: 719 UNAMBIGUOUS AND 121 AMBIGUOUS NON-DEGENERATE DISTANCE RESTRAINTS, 24 PAIRS OF DIHEDRAL RESTRAINTS FROM TALOS, AND 20 HYDROGEN BONDS. | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 60 |