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Yorodumi- PDB-6h9o: Complex of the periplasmic domains of bacterial cell division pro... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6h9o | |||||||||
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Title | Complex of the periplasmic domains of bacterial cell division proteins FtsQ and FtsB | |||||||||
Components |
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Keywords | CELL CYCLE / bacterial cell division / divisome | |||||||||
Function / homology | Function and homology information FtsQBL complex / divisome complex / FtsZ-dependent cytokinesis / division septum assembly / cell division site / plasma membrane => GO:0005886 / cell division / identical protein binding / plasma membrane Similarity search - Function | |||||||||
Biological species | Escherichia coli (E. coli) Escherichia coli S88 (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.8 Å | |||||||||
Authors | Kureisaite-Ciziene, D. / Lowe, J. | |||||||||
Funding support | United Kingdom, 2items
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Citation | Journal: MBio / Year: 2018 Title: Structural Analysis of the Interaction between the Bacterial Cell Division Proteins FtsQ and FtsB. Authors: Kureisaite-Ciziene, D. / Varadajan, A. / McLaughlin, S.H. / Glas, M. / Monton Silva, A. / Luirink, R. / Mueller, C. / den Blaauwen, T. / Grossmann, T.N. / Luirink, J. / Lowe, J. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6h9o.cif.gz | 102.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6h9o.ent.gz | 77.8 KB | Display | PDB format |
PDBx/mmJSON format | 6h9o.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6h9o_validation.pdf.gz | 452.3 KB | Display | wwPDB validaton report |
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Full document | 6h9o_full_validation.pdf.gz | 467.7 KB | Display | |
Data in XML | 6h9o_validation.xml.gz | 19.7 KB | Display | |
Data in CIF | 6h9o_validation.cif.gz | 25.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/h9/6h9o ftp://data.pdbj.org/pub/pdb/validation_reports/h9/6h9o | HTTPS FTP |
-Related structure data
Related structure data | 6h9nC 2vh1S 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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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 26269.643 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Strain: K12 / Gene: ftsQ, b0093, JW0091 / Production host: Escherichia coli (E. coli) / References: UniProt: P06136 #2: Protein/peptide | Mass: 2883.177 Da / Num. of mol.: 2 / Source method: obtained synthetically Details: Met 77 in FtsB was replaced with Norleucin (Nle) as this is a synthetic peptide Source: (synth.) Escherichia coli S88 (bacteria) / References: UniProt: B7MKM2 |
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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: 2.94 Å3/Da / Density % sol: 58.11 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 6.5 Details: 0.057 M potassium thiocyanate, 10 % PEG 550 MME, 0.1 M sodium cacodylate pH 6.5. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 0.9795 Å |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Apr 22, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→50 Å / Num. obs: 15922 / % possible obs: 98.5 % / Redundancy: 3.2 % / CC1/2: 0.998 / Rmerge(I) obs: 0.077 / Rpim(I) all: 0.051 / Net I/σ(I): 10.6 |
Reflection shell | Resolution: 2.8→2.95 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.744 / Mean I/σ(I) obs: 1.8 / Num. unique obs: 2374 / CC1/2: 0.686 / Rpim(I) all: 0.488 / % possible all: 99.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2VH1 Resolution: 2.8→29.834 Å / SU ML: 0.45 / Cross valid method: FREE R-VALUE / σ(F): 1.14 / Phase error: 30.72
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→29.834 Å
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Refine LS restraints |
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LS refinement shell |
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