+Open data
-Basic information
Entry | Database: PDB / ID: 2x6c | ||||||
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Title | Potassium Channel from Magnetospirillum Magnetotacticum | ||||||
Components | ATP-SENSITIVE INWARD RECTIFIER POTASSIUM CHANNEL 10 | ||||||
Keywords | METAL TRANSPORT / INTEGRAL MEMBRANE PROTEIN / ION CHANNEL | ||||||
Function / homology | Function and homology information inward rectifier potassium channel activity / regulation of monoatomic ion transmembrane transport / monoatomic ion channel complex / potassium ion import across plasma membrane / identical protein binding / plasma membrane Similarity search - Function | ||||||
Biological species | MAGNETOSPIRILLUM MAGNETOTACTICUM (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.7 Å | ||||||
Authors | Clarke, O.B. / Caputo, A.T. / Hill, A.P. / Vandenberg, J.I. / Smith, B.J. / Gulbis, J.M. | ||||||
Citation | Journal: Cell(Cambridge,Mass.) / Year: 2010 Title: Domain Reorientation and Rotation of an Intracellular Assembly Regulate Conduction in Kir Potassium Channels. Authors: Clarke, O.B. / Caputo, A.T. / Hill, A.P. / Vandenberg, J.I. / Smith, B.J. / Gulbis, J.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2x6c.cif.gz | 126.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2x6c.ent.gz | 97.2 KB | Display | PDB format |
PDBx/mmJSON format | 2x6c.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2x6c_validation.pdf.gz | 447.7 KB | Display | wwPDB validaton report |
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Full document | 2x6c_full_validation.pdf.gz | 458.2 KB | Display | |
Data in XML | 2x6c_validation.xml.gz | 14.1 KB | Display | |
Data in CIF | 2x6c_validation.cif.gz | 18.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/x6/2x6c ftp://data.pdbj.org/pub/pdb/validation_reports/x6/2x6c | HTTPS FTP |
-Related structure data
Related structure data | 2wlhSC 2wliC 2wljC 2wlkC 2wllC 2wlmC 2wlnC 2wloC 2x6aC 2x6bC 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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Unit cell |
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Components on special symmetry positions |
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-Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 33725.715 Da / Num. of mol.: 1 / Fragment: RESIDUES 26-320 Source method: isolated from a genetically manipulated source Details: C-TERMINAL HIS-TAG Source: (gene. exp.) MAGNETOSPIRILLUM MAGNETOTACTICUM (bacteria) Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3)STAR / References: UniProt: D9N164*PLUS |
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-Non-polymers , 5 types, 64 molecules
#2: Chemical | ChemComp-PC / | ||||||
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#3: Chemical | ChemComp-SM / #4: Chemical | ChemComp-K / #5: Chemical | ChemComp-CL / | #6: Water | ChemComp-HOH / | |
-Details
Sequence details | RESIDUES 5-295 CORRESPOND TO GENBANK ACCESSION ZP_00055625 C-TERMINAL HIS-TAG IN PRESENT ENTRY. ...RESIDUES 5-295 CORRESPOND |
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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: 4.25 Å3/Da / Density % sol: 71 % / Description: NONE |
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Crystal grow | pH: 7.5 Details: AS PER WWPDB ENTRY 2X6A, EXCEPT THE CRYSTAL WAS SOAKED WITH 2MM SMAC (FINAL CONCENTRATION IN THE DROP) FOR 16HRS PRIOR TO DATA COLLECTION., pH 7.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Australian Synchrotron / Beamline: MX2 / Wavelength: 0.953694 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Nov 4, 2009 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.953694 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→50 Å / Num. obs: 14682 / % possible obs: 99.9 % / Observed criterion σ(I): -3 / Redundancy: 7 % / Biso Wilson estimate: 64.86 Å2 / Rmerge(I) obs: 0.08 / Net I/σ(I): 23.2 |
Reflection shell | Resolution: 2.7→2.8 Å / Redundancy: 7 % / Rmerge(I) obs: 0.93 / Mean I/σ(I) obs: 2.3 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2WLH Resolution: 2.7→41.983 Å / SU ML: 0.49 / σ(F): 1.33 / Phase error: 23.06 / Stereochemistry target values: ML Details: ANOMALOUS DIFFERENCE MAP WAS USED TO GUIDE THE PLACEMENT OF SAMARIUM IONS. THE INDIVIDUAL FRIEDELS (I+ AND I-) WERE USED AS INDEPENDENT REFLECTIONS DURING REFINEMENT BY PHENIX
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 59.245 Å2 / ksol: 0.274 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.7→41.983 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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