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Yorodumi- PDB-2jkn: DraE Adhesin in complex with Chloramphenicol Succinate (trigonal form) -
+Open data
-Basic information
Entry | Database: PDB / ID: 2jkn | ||||||
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Title | DraE Adhesin in complex with Chloramphenicol Succinate (trigonal form) | ||||||
Components | DR HEMAGGLUTININ STRUCTURAL SUBUNIT | ||||||
Keywords | CELL ADHESION / UPEC / DRAE / DAEC / ADHESIN / FIMBRIUM / HAEMAGGLUTININ / CELL PROJECTION / FIMBRIAL ADHESIN / CHLORAMPHENICOL SUCCINATE | ||||||
Function / homology | Function and homology information | ||||||
Biological species | ESCHERICHIA COLI (E. coli) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Pettigrew, D.M. / Roversi, P. / Davies, S.G. / Russell, A.J. / Lea, S.M. | ||||||
Citation | Journal: Acta Crystallogr. D Biol. Crystallogr. / Year: 2009 Title: A structural study of the interaction between the Dr haemagglutinin DraE and derivatives of chloramphenicol. Authors: Pettigrew, D.M. / Roversi, P. / Davies, S.G. / Russell, A.J. / Lea, S.M. | ||||||
History |
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Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2jkn.cif.gz | 192 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2jkn.ent.gz | 155.6 KB | Display | PDB format |
PDBx/mmJSON format | 2jkn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2jkn_validation.pdf.gz | 5.4 MB | Display | wwPDB validaton report |
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Full document | 2jkn_full_validation.pdf.gz | 5.5 MB | Display | |
Data in XML | 2jkn_validation.xml.gz | 49.6 KB | Display | |
Data in CIF | 2jkn_validation.cif.gz | 65.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jk/2jkn ftp://data.pdbj.org/pub/pdb/validation_reports/jk/2jkn | HTTPS FTP |
-Related structure data
Related structure data | 2jkjC 2jklC 2w5pC 1usqS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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2 |
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3 |
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4 |
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5 |
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6 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Protein | Mass: 16169.844 Da / Num. of mol.: 6 / Fragment: ADHESIN SUBUNIT, RESIDUES 23-160 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ESCHERICHIA COLI (E. coli) / Strain: IH11128 / Cell line: M15 / Variant: O75\:K5\:H / Plasmid: PQE-30 / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P24093 #2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-CL8 / #4: Chemical | ChemComp-EDO / #5: 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: 2.56 Å3/Da / Density % sol: 52 % / Description: NONE |
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Crystal grow | Details: 2M AMMONIUM SULPHATE, 0.1-20 MM CHLORAMPHENICOL SUCCINATE, 0.1 M HEPES PH 7.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU FR-D / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Oct 26, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→30 Å / Num. obs: 60758 / % possible obs: 98.2 % / Observed criterion σ(I): 0 / Redundancy: 3.3 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 4.6 |
Reflection shell | Resolution: 1.9→2 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.21 / Mean I/σ(I) obs: 2.1 / % possible all: 97.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1USQ Resolution: 1.9→30 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 1.9→30 Å
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