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- PDB-1kgz: Crystal Structure Analysis of the Anthranilate Phosphoribosyltran... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1kgz | ||||||
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Title | Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase from Erwinia carotovora (current name, Pectobacterium carotovorum) | ||||||
![]() | Anthranilate phosphoribosyltransferase | ||||||
![]() | TRANSFERASE / type 3 prt fold / nucleotide binding fold | ||||||
Function / homology | ![]() anthranilate phosphoribosyltransferase / anthranilate phosphoribosyltransferase activity / tryptophan biosynthetic process / magnesium ion binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Kim, C. / Xuong, N.-H. / Edwards, S. / Madhusudan / Yee, M.-C. / Spraggon, G. / Mills, S.E. | ||||||
![]() | ![]() Title: The Crystal Structure of Anthranilate Phosphoribosyltransferase from the Enterobacterium Pectobacterium carotovorum Authors: Kim, C. / Xuong, N.-H. / Edwards, S. / Madhusudan / Yee, M.-C. / Spraggon, G. / Mills, S.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.2 KB | Display | ![]() |
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PDB format | ![]() | 109.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 487.8 KB | Display | ![]() |
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Full document | ![]() | 509.4 KB | Display | |
Data in XML | ![]() | 17.4 KB | Display | |
Data in CIF | ![]() | 26.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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: 37057.117 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: Q8VP84, anthranilate phosphoribosyltransferase #2: Chemical | #3: Chemical | ChemComp-MN / #4: Sugar | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.23 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: PEG 3000, MnCl2, glutamine, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 200 K |
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Diffraction source | Source: ![]() |
Detector | Detector: AREA DETECTOR / Date: Aug 7, 2000 |
Radiation | Monochromator: YALE MIRRORS / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2.4→25 Å / Num. all: 25162 / Num. obs: 24349 / % possible obs: 98.6 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 25 % / Rmerge(I) obs: 0.074 / Rsym value: 0.078 / Net I/σ(I): 37.6 |
Reflection shell | Resolution: 2.4→2.49 Å / Rmerge(I) obs: 0.334 / Mean I/σ(I) obs: 7.1 / Num. unique all: 2394 / Rsym value: 0.311 / % possible all: 98.6 |
Reflection | *PLUS Lowest resolution: 50 Å / Num. obs: 20457 / % possible obs: 98.7 % / Redundancy: 3.6 % / Rmerge(I) obs: 0.067 |
Reflection shell | *PLUS Rmerge(I) obs: 0.398 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2.4→25 Å
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Refinement | *PLUS Highest resolution: 2.44 Å / Lowest resolution: 50 Å / Rfactor Rfree: 0.2643 / Rfactor Rwork: 0.2125 | ||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||
Refine LS restraints | *PLUS
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