+Open data
-Basic information
Entry | Database: PDB / ID: 2xcm | ||||||
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Title | COMPLEX OF HSP90 N-TERMINAL, SGT1 CS AND RAR1 CHORD2 DOMAIN | ||||||
Components |
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Keywords | CHAPERONE/PROTEIN BINDING / CHAPERONE-PROTEIN BINDING COMPLEX / STRESS RESPONSE | ||||||
Function / homology | Function and homology information defense response to fungus => GO:0050832 / defense response to bacterium => GO:0042742 / regulation of defense response to fungus / cellular response to auxin stimulus / plant-type hypersensitive response / embryo development ending in seed dormancy / respiratory burst involved in defense response / SCF ubiquitin ligase complex / defense response to fungus / ATP-dependent protein folding chaperone ...defense response to fungus => GO:0050832 / defense response to bacterium => GO:0042742 / regulation of defense response to fungus / cellular response to auxin stimulus / plant-type hypersensitive response / embryo development ending in seed dormancy / respiratory burst involved in defense response / SCF ubiquitin ligase complex / defense response to fungus / ATP-dependent protein folding chaperone / Hsp90 protein binding / defense response / unfolded protein binding / cellular response to heat / protein-folding chaperone binding / cellular response to hypoxia / ubiquitin-dependent protein catabolic process / protein stabilization / defense response to bacterium / innate immune response / perinuclear region of cytoplasm / ATP hydrolysis activity / protein-containing complex / zinc ion binding / ATP binding / metal ion binding / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | HORDEUM VULGARE (barley) ARABIDOPSIS THALIANA (thale cress) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Zhang, M. / Pearl, L.H. | ||||||
Citation | Journal: Mol.Cell / Year: 2010 Title: Structural Basis for Assembly of Hsp90-Sgt1-Chord Protein Complexes: Implications for Chaperoning of Nlr Innate Immunity Receptors Authors: Zhang, M. / Kadota, Y. / Prodromou, C. / Shirasu, K. / Pearl, L.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2xcm.cif.gz | 170.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2xcm.ent.gz | 133.7 KB | Display | PDB format |
PDBx/mmJSON format | 2xcm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xc/2xcm ftp://data.pdbj.org/pub/pdb/validation_reports/xc/2xcm | HTTPS FTP |
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-Related structure data
Related structure data | 2jklS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
-Protein , 3 types, 6 molecules ABCDEF
#1: Protein | Mass: 23942.936 Da / Num. of mol.: 2 / Fragment: ATPASE DOMAIN, RESIDUES 2-210 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HORDEUM VULGARE (barley) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: Q7XJ80 #2: Protein | Mass: 10541.194 Da / Num. of mol.: 2 / Fragment: CS DOMAIN, RESIDUES 73-164 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ARABIDOPSIS THALIANA (thale cress) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: Q84LL4, UniProt: Q9SUR9*PLUS #3: Protein | Mass: 8407.478 Da / Num. of mol.: 2 / Fragment: CHORD2 DOMAIN, RESIDUES 149-221 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ARABIDOPSIS THALIANA (thale cress) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: Q9FLI9, UniProt: Q9SE33*PLUS |
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-Non-polymers , 4 types, 278 molecules
#4: Chemical | #5: Chemical | #6: Chemical | ChemComp-ZN / #7: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.16 Å3/Da / Density % sol: 61.08 % / Description: NONE |
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Crystal grow | pH: 7.5 / Details: 0.1M HEPES PH 7.5 23% PEG5000 MME |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I03 / Wavelength: 0.92 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Apr 13, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→63.37 Å / Num. obs: 52431 / % possible obs: 98.5 % / Observed criterion σ(I): 5 / Redundancy: 2.68 % / Biso Wilson estimate: 29.81 Å2 / Rmerge(I) obs: 0.07 / Net I/σ(I): 8.39 |
Reflection shell | Resolution: 3→3.16 Å / Redundancy: 2.68 % / Rmerge(I) obs: 0.34 / Mean I/σ(I) obs: 2.22 / % possible all: 98.6 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2JKL Resolution: 2.2→46.78 Å / SU ML: 0.34 / σ(F): 2.01 / Phase error: 24.15 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 34.71 Å2 / ksol: 0.36 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.2→46.78 Å
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Refine LS restraints |
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LS refinement shell |
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