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- PDB-1ss4: Crystal Structure of the Glyoxalase Family Protein APC24694 from ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ss4 | ||||||
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Title | Crystal Structure of the Glyoxalase Family Protein APC24694 from Bacillus cereus | ||||||
![]() | Glyoxalase family protein | ||||||
![]() | Structural Genomics / unknown function / Glyoxalase / Bacillus cereus / PSI / Protein Structure Initiative / Midwest Center for Structural Genomics / MCSG | ||||||
Function / homology | ![]() Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily / 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 / 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 / Vicinal oxygen chelate (VOC) domain / Vicinal oxygen chelate (VOC) domain profile. / Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase / Roll / Alpha Beta Similarity search - Domain/homology | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kim, Y. / Li, H. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
![]() | ![]() Title: Crystal Structure of the Glyoxalase Family Protein APC24694 from Bacillus cereus Authors: Kim, Y. / Li, H. / Joachimiak, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 74.1 KB | Display | ![]() |
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PDB format | ![]() | 59.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 786 KB | Display | ![]() |
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Full document | ![]() | 792.4 KB | Display | |
Data in XML | ![]() | 18 KB | Display | |
Data in CIF | ![]() | 25.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 17152.611 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Non-polymers , 7 types, 285 molecules ![](data/chem/img/ACT.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/CIT.gif)
![](data/chem/img/FMT.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/GSH.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/CIT.gif)
![](data/chem/img/FMT.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/GSH.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-ACT / | ||||||
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#3: Chemical | ChemComp-NA / | ||||||
#4: Chemical | ChemComp-CIT / | ||||||
#5: Chemical | ChemComp-FMT / #6: Chemical | ChemComp-MG / | #7: Chemical | ChemComp-GSH / | #8: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.96 Å3/Da / Density % sol: 58.52 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 5.3 Details: Sodium acetate, sodium formate, sodium citrate, pH 5.3, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation |
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Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 | ||||||||||||||||||
Reflection | Resolution: 1.84→33.57 Å / Num. all: 37317 / Num. obs: 35036 / % possible obs: 96.7 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 5.8 % / Biso Wilson estimate: 15.4 Å2 / Rmerge(I) obs: 0.083 / Net I/σ(I): 7 | ||||||||||||||||||
Reflection shell | Resolution: 1.84→1.91 Å / Redundancy: 5.2 % / Rmerge(I) obs: 0.391 / % possible all: 82.7 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 52.8672 Å2 / ksol: 0.402708 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 33 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.84→33.57 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.84→1.96 Å / Rfactor Rfree error: 0.016 / Total num. of bins used: 6
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Xplor file |
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