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Yorodumi- PDB-2k2s: structure of the MIC1-GLD/MIC6-EGF complex from Toxoplasma gondii -
+Open data
-Basic information
Entry | Database: PDB / ID: 2k2s | ||||||
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Title | structure of the MIC1-GLD/MIC6-EGF complex from Toxoplasma gondii | ||||||
Components |
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Keywords | CELL ADHESION / microneme protein complex / Cytoplasmic vesicle / Lectin / Virulence / EGF-like domain / Membrane / Transmembrane | ||||||
Function / homology | Function and homology information microneme membrane / microneme / cytoplasmic vesicle / carbohydrate binding / cell adhesion / calcium ion binding / extracellular region Similarity search - Function | ||||||
Biological species | Toxoplasma gondii (eukaryote) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | microneme protein complex from T. gondii | ||||||
Authors | Matthews, S. | ||||||
Citation | Journal: Embo Rep. / Year: 2008 Title: Structural insights into microneme protein assembly reveal a new mode of EGF domain recognition Authors: Sawmynaden, K. / Saouros, S. / Friedrich, N. / Marchant, J. / Simpson, P. / Bleijlevens, B. / Blackman, M.J. / Soldati-Favre, D. / Matthews, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2k2s.cif.gz | 66.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2k2s.ent.gz | 54.3 KB | Display | PDB format |
PDBx/mmJSON format | 2k2s.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/k2/2k2s ftp://data.pdbj.org/pub/pdb/validation_reports/k2/2k2s | HTTPS FTP |
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-Related structure data
Related structure data | 2k2tC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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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: 13959.493 Da / Num. of mol.: 1 / Fragment: Galectin-like domain (UNP residues 320-455) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Toxoplasma gondii (eukaryote) / Gene: MIC1 / Production host: Escherichia coli (E. coli) / References: UniProt: O00834 |
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#2: Protein | Mass: 6366.056 Da / Num. of mol.: 1 / Fragment: EGF-like domain (UNP residues 87-147) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Toxoplasma gondii (eukaryote) / Gene: MIC6 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9XYH7 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR / Details: microneme protein complex from T. gondii | ||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | Ionic strength: 0.075 / pH: 6.8 / Pressure: ambient / Temperature: 303 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||
NMR constraints | NOE constraints total: 4760 / NOE intraresidue total count: 1035 / NOE long range total count: 989 / NOE medium range total count: 269 / NOE sequential total count: 618 | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 40 / Conformers submitted total number: 1 / Maximum lower distance constraint violation: 0.5 Å / Maximum upper distance constraint violation: 0.5 Å | ||||||||||||
NMR ensemble rms | Distance rms dev: 0.017 Å / Distance rms dev error: 0.002 Å |