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Yorodumi- PDB-2i49: Crystal structure of apo form of Bicarbonate Transport Protein Cm... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2i49 | ||||||
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Title | Crystal structure of apo form of Bicarbonate Transport Protein CmpA from Synechocystis sp. PCC 6803 | ||||||
Components | Bicarbonate transporter | ||||||
Keywords | TRANSPORT PROTEIN / alpha-beta protein / C-clamp / ABC transporter / periplasmic solute-binding protein / bicarbonate-binding protein | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Synechocystis sp. (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.35 Å | ||||||
Authors | Koropatkin, N.M. / Smith, T.J. / Pakrasi, H.B. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2007 Title: The Structure of a Cyanobacterial Bicarbonate Transport Protein, CmpA. Authors: Koropatkin, N.M. / Koppenaal, D.W. / Pakrasi, H.B. / Smith, T.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2i49.cif.gz | 99.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2i49.ent.gz | 73 KB | Display | PDB format |
PDBx/mmJSON format | 2i49.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/i4/2i49 ftp://data.pdbj.org/pub/pdb/validation_reports/i4/2i49 | HTTPS FTP |
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-Related structure data
Related structure data | 2i48SC 2i4bC 2i4cC 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: 47085.863 Da / Num. of mol.: 1 / Fragment: solute-binding domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Synechocystis sp. (bacteria) / Strain: PCC 6803 / Gene: cmpA / Plasmid: pET-28rTEV / Production host: Escherichia coli (E. coli) / Strain (production host): Rosetta(DE3)pLysS / References: UniProt: Q55460 |
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#2: 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: 2.59 Å3/Da / Density % sol: 52.51 % |
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Crystal grow | Temperature: 298 K / Method: batch/microseeding / pH: 8 Details: Ammonium sulfate, HEPPS pH 8.0, EGTA, batch/microseeding, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: BRUKER AXS MICROSTAR / Wavelength: 1.5418 |
Detector | Type: Bruker Platinum 135 / Detector: CCD / Date: May 10, 2006 / Details: Helios |
Radiation | Monochromator: HELIOS MULTILAYER; DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.35→25.6 Å / Num. all: 103049 / Num. obs: 103049 / % possible obs: 99.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 7.2 % / Rsym value: 0.036 / Net I/σ(I): 29.8 |
Reflection shell | Resolution: 1.35→1.45 Å / Redundancy: 3.7 % / Mean I/σ(I) obs: 6 / Rsym value: 0.219 / % possible all: 98.1 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ID 2I48 Resolution: 1.35→25.6 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 50.334 Å2 | ||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 10.327 Å2
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Refinement step | Cycle: LAST / Resolution: 1.35→25.6 Å
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Refine LS restraints |
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Xplor file |
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