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Yorodumi- PDB-6gwh: Outward-facing conformation of a multidrug resistance MATE family... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6gwh | |||||||||
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Title | Outward-facing conformation of a multidrug resistance MATE family transporter of the MOP superfamily. | |||||||||
Components | MOP transporter | |||||||||
Keywords | MEMBRANE PROTEIN / MOP flippase | |||||||||
Function / homology | : / Multi antimicrobial extrusion protein / MatE / antiporter activity / xenobiotic transmembrane transporter activity / plasma membrane / MATE family efflux transporter Function and homology information | |||||||||
Biological species | Pyrococcus furiosus (archaea) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.8 Å | |||||||||
Authors | Zakrzewska, S. / Safarian, S. / Michel, H. | |||||||||
Funding support | Germany, 2items
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Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2019 Title: Inward-facing conformation of a multidrug resistance MATE family transporter. Authors: Zakrzewska, S. / Mehdipour, A.R. / Malviya, V.N. / Nonaka, T. / Koepke, J. / Muenke, C. / Hausner, W. / Hummer, G. / Safarian, S. / Michel, H. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6gwh.cif.gz | 92.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6gwh.ent.gz | 71.3 KB | Display | PDB format |
PDBx/mmJSON format | 6gwh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gw/6gwh ftp://data.pdbj.org/pub/pdb/validation_reports/gw/6gwh | HTTPS FTP |
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-Related structure data
Related structure data | 4mlbSC 6fhzC 6hfbC 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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Unit cell |
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-Components
#1: Protein | Mass: 49276.258 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) (archaea) Gene: PF0708 / Production host: Escherichia coli (E. coli) / References: UniProt: Q8U2X0 |
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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: 3.31 Å3/Da / Density % sol: 62.84 % |
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Crystal grow | Temperature: 295 K / Method: lipidic cubic phase / pH: 5 / Details: 30% PEG 500, 100 mM Na3C6H5O7-C6H8O7, 100 mM NaCl |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SLS / Beamline: X10SA / Wavelength: 1 Å |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Oct 8, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→19.97 Å / Num. obs: 16175 / % possible obs: 97.34 % / Redundancy: 4.2 % / CC1/2: 0.995 / Net I/σ(I): 7.23 |
Reflection shell | Resolution: 2.8→2.9 Å / Rmerge(I) obs: 0.9734 / Num. unique obs: 4495 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4MLB Resolution: 2.8→19.97 Å / SU ML: 0.48 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 33.99
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→19.97 Å
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Refine LS restraints |
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LS refinement shell |
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