+Open data
-Basic information
Entry | Database: PDB / ID: 1sq5 | ||||||
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Title | Crystal Structure of E. coli Pantothenate kinase | ||||||
Components | Pantothenate kinase | ||||||
Keywords | TRANSFERASE / P-loop | ||||||
Function / homology | Function and homology information pantetheine kinase activity / pantothenate kinase / pantothenate kinase activity / coenzyme A biosynthetic process / phosphorylation / protein homodimerization activity / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Ivey, R.A. / Zhang, Y.-M. / Virga, K.G. / Hevener, K. / Lee, R.E. / Rock, C.O. / Jackowski, S. / Park, H.-W. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2004 Title: The structure of the pantothenate kinase.ADP.pantothenate ternary complex reveals the relationship between the binding sites for substrate, allosteric regulator, and antimetabolites. Authors: Ivey, R.A. / Zhang, Y.-M. / Virga, K.G. / Hevener, K. / Lee, R.E. / Rock, C.O. / Jackowski, S. / Park, H.-W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1sq5.cif.gz | 276.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1sq5.ent.gz | 217.7 KB | Display | PDB format |
PDBx/mmJSON format | 1sq5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sq/1sq5 ftp://data.pdbj.org/pub/pdb/validation_reports/sq/1sq5 | HTTPS FTP |
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-Related structure data
Related structure data | |
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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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3 |
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Unit cell |
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-Components
#1: Protein | Mass: 35473.598 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: COAA, RTS, PANK, B3974, C4933, Z5545, ECS4901 / Plasmid: pET21a / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P0A6I3, pantothenate kinase #2: Chemical | ChemComp-PAU / #3: Chemical | ChemComp-ADP / #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: 2.66 Å3/Da / Density % sol: 53.74 % |
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Crystal grow | Details: VAPOR DIFFUSION, HANGING DROP |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 22-ID / Wavelength: 1 |
Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→20 Å / Num. obs: 70252 / % possible obs: 99.2 % / Observed criterion σ(I): 2 / Redundancy: 3.6 % / Rsym value: 0.069 / Net I/σ(I): 15.2 |
Reflection shell | Resolution: 2.2→2.28 Å / Redundancy: 3.6 % / Mean I/σ(I) obs: 3.3 / Rsym value: 0.034 / % possible all: 98.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.2→20 Å / Cross valid method: MOLEMAN2 / σ(F): 2
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Displacement parameters | Biso mean: 29.4 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.21 Å / Total num. of bins used: 50 /
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