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Yorodumi- PDB-6n7e: Crystal structure of the cytosolic domain of human CNNM2 in compl... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6n7e | ||||||
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Title | Crystal structure of the cytosolic domain of human CNNM2 in complex with AMP-PNP and Mg2+ | ||||||
Components | Metal transporter CNNM2,Metal transporter CNNM2 | ||||||
Keywords | METAL TRANSPORT / CNNM2 / Mg2+ transporter / cystathionine-beta-synthase domain / cyclic nucleotide-binding homology domain / ATP-bound / closed conformation / MEMBRANE PROTEIN | ||||||
Function / homology | Function and homology information magnesium ion homeostasis / magnesium ion transmembrane transporter activity / basolateral plasma membrane / ATP binding / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.5 Å | ||||||
Authors | Chen, Y.S. / Gehring, K. | ||||||
Citation | Journal: Structure / Year: 2020 Title: Mg2+-ATP Sensing in CNNM, a Putative Magnesium Transporter. Authors: Chen, Y.S. / Kozlov, G. / Fakih, R. / Yang, M. / Zhang, Z. / Kovrigin, E.L. / Gehring, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6n7e.cif.gz | 684.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6n7e.ent.gz | 569.6 KB | Display | PDB format |
PDBx/mmJSON format | 6n7e.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/n7/6n7e ftp://data.pdbj.org/pub/pdb/validation_reports/n7/6n7e | HTTPS FTP |
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-Related structure data
Related structure data | 6mn6C 4p1oS 6dj3S C: citing same article (ref.) 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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-Components
#1: Protein | Mass: 40802.633 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: CNNM2, ACDP2 / Plasmid: pET-29a(+) / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: Q9H8M5 #2: Chemical | ChemComp-ANP / #3: Chemical | ChemComp-MG / #4: 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: 5.03 Å3/Da / Density % sol: 75.53 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.1 M Bis-Tris, pH 6.5, 0.5 M magnesium formate, 5 mM AMP-PNP |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: CLSI / Beamline: 08ID-1 / Wavelength: 0.9796 Å |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Jun 29, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9796 Å / Relative weight: 1 |
Reflection | Resolution: 3.3→50 Å / Num. obs: 36991 / % possible obs: 99.8 % / Redundancy: 3.4 % / Net I/σ(I): 17.6 |
Reflection shell | Resolution: 3.3→3.36 Å / Redundancy: 3.4 % / Mean I/σ(I) obs: 0.5 / Num. unique obs: 683 / CC1/2: 0.148 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4P1O, 6DJ3 Resolution: 3.5→48.76 Å / Cross valid method: THROUGHOUT
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Refinement step | Cycle: LAST / Resolution: 3.5→48.76 Å
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