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Yorodumi- PDB-3a1w: Crystal structue of the G domain of T. maritima FeoB iron iransporter -
+Open data
-Basic information
Entry | Database: PDB / ID: 3a1w | ||||||
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Title | Crystal structue of the G domain of T. maritima FeoB iron iransporter | ||||||
Components | Iron(II) transport protein B | ||||||
Keywords | TRANSPORT PROTEIN / FeoB / iron transporter / small GTPase / GDI / G protein | ||||||
Function / homology | Function and homology information ferrous iron transmembrane transporter activity / GTP binding / metal ion binding / plasma membrane Similarity search - Function | ||||||
Biological species | Thermotoga maritima (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.9001 Å | ||||||
Authors | Hattori, M. / Ishitani, R. / Nureki, O. | ||||||
Citation | Journal: Structure / Year: 2009 Title: Structural basis of novel interactions between the small-GTPase and GDI-like domains in prokaryotic FeoB iron transporter Authors: Hattori, M. / Jin, Y. / Nishimasu, H. / Tanaka, Y. / Mochizuki, M. / Uchiumi, T. / Ishitani, R. / Ito, K. / Nureki, O. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3a1w.cif.gz | 79.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3a1w.ent.gz | 58.7 KB | Display | PDB format |
PDBx/mmJSON format | 3a1w.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a1/3a1w ftp://data.pdbj.org/pub/pdb/validation_reports/a1/3a1w | HTTPS FTP |
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-Related structure data
Related structure data | 3a1sSC 3a1tC 3a1uC 3a1vC 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: 18534.455 Da / Num. of mol.: 1 / Fragment: UNP residues 17-269 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Thermotoga maritima (bacteria) / Gene: TM0051 / Plasmid: pET28a / Production host: Escherichia coli (E. coli) / Strain (production host): C41(DE3) / References: UniProt: Q9WXQ8 |
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#2: Chemical | ChemComp-SO4 / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.15 Å3/Da / Density % sol: 60.9 % |
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Crystal grow | Details: 1.1-1.3M Ammonium Sulfate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: AR-NW12A |
Detector | Date: Jan 17, 2009 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 1.8→50 Å / Num. obs: 21851 |
-Processing
Software | Name: PHENIX / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 3A1S Resolution: 1.9001→41.746 Å / SU ML: 0.69 / σ(F): 0.08 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 77.784 Å2 / ksol: 0.389 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9001→41.746 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 2.1148 Å / Origin y: -21.5756 Å / Origin z: -17.9074 Å
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Refinement TLS group | Selection details: chain A 15-177 |