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- PDB-5hv7: Putative sugar kinases from Synechococcus elongatus PCC7942 in co... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5hv7 | |||||||||
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Title | Putative sugar kinases from Synechococcus elongatus PCC7942 in complex with D-ribulose | |||||||||
![]() | Probable sugar kinase | |||||||||
![]() | TRANSFERASE / complex / putative sugar kinases / Synechococcus elongatus PCC7942 / D-ribulose | |||||||||
Function / homology | ![]() D-ribulokinase / D-ribulokinase activity / glycerol-3-phosphate biosynthetic process / glycerol kinase activity / glycerol metabolic process / triglyceride metabolic process / ATP binding Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Xie, Y. / Li, M. / Chang, W. | |||||||||
![]() | ![]() Title: Crystal Structures of Putative Sugar Kinases from Synechococcus Elongatus PCC 7942 and Arabidopsis Thaliana Authors: Xie, Y. / Li, M. / Chang, W. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 93.5 KB | Display | ![]() |
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PDB format | ![]() | 73.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 446 KB | Display | ![]() |
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Full document | ![]() | 450.3 KB | Display | |
Data in XML | ![]() | 18.4 KB | Display | |
Data in CIF | ![]() | 25.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5htjC ![]() 5htnC ![]() 5htpC ![]() 5htrC ![]() 5htvC ![]() 5htxC ![]() 5htyC ![]() 5hu2C ![]() 5huxC C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 47307.238 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: PCC 7942 / Gene: Synpcc7942_2462 / Plasmid: PET28a / Production host: ![]() ![]() | ||
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#2: Sugar | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 47.02 % |
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Crystal grow | Temperature: 281 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.1M BIS-TRIS pH 6.5, 20% w/v Polyethylene glycol monomethyl ether 5000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU SATURN 944 / Detector: CCD / Date: Dec 31, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54178 Å / Relative weight: 1 |
Reflection | Resolution: 2.35→50 Å / Num. obs: 17931 / % possible obs: 99.8 % / Redundancy: 6.9 % / Rmerge(I) obs: 0.095 / Net I/σ(I): 19.38 |
Reflection shell | Resolution: 2.35→2.43 Å / Redundancy: 6.7 % / Rmerge(I) obs: 0.507 / Mean I/σ(I) obs: 4.64 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.35→24.475 Å
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Refine LS restraints |
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LS refinement shell |
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