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- PDB-5cof: Crystal structure of Uncharacterised protein Q1R1X2 from Escheric... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5cof | ||||||
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Title | Crystal structure of Uncharacterised protein Q1R1X2 from Escherichia coli UTI89 | ||||||
![]() | Uncharacterized protein | ||||||
![]() | UNKNOWN FUNCTION / Bacteriocin / sporulation / DUF1706 / cell cycle | ||||||
Function / homology | Protein of unknown function DUF1706 / Protein of unknown function (DUF1706) / dinb family like domain / DinB/YfiT-like putative metalloenzymes / Four Helix Bundle (Hemerythrin (Met), subunit A) / Up-down Bundle / Mainly Alpha / metal ion binding / Uncharacterized protein![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Taylor, J.D. / Hare, S. / Matthews, S.J. | ||||||
![]() | ![]() Title: Structures of the DfsB Protein Family Suggest a Cationic, Helical Sibling Lethal Factor Peptide. Authors: Taylor, J.D. / Taylor, G. / Hare, S.A. / Matthews, S.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 165.6 KB | Display | ![]() |
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PDB format | ![]() | 138.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 297.2 KB | Display | ![]() |
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Full document | ![]() | 297.6 KB | Display | |
Data in XML | ![]() | 13 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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1 |
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Unit cell |
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Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 19931.938 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: UTI89 / UPEC / Gene: UTI89_P066 / Plasmid: pNIC28-Bsa4 / Production host: ![]() ![]() |
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-Non-polymers , 5 types, 359 molecules ![](data/chem/img/MPD.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-MPD / ( | ||||
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#3: Chemical | ChemComp-CL / | ||||
#4: Chemical | #5: Chemical | ChemComp-NA / | #6: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.8 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 60 mM Magnesium chloride hexahydrate, 60 mM Calcium chloride dihydrate, 0.1 M imidazole, 0.1 M MES monohydrate, pH 6.5, 12.5% MPD, 12.5 % PEG 1000, 12.5% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Mar 13, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 1.26→41.34 Å / Num. obs: 38126 / % possible obs: 98.93 % / Redundancy: 13.6 % / Rmerge(I) obs: 0.14 / Net I/σ(I): 13 |
Reflection shell | Resolution: 1.35→1.385 Å / Redundancy: 4.3 % / Rmerge(I) obs: 0.462 / Mean I/σ(I) obs: 2.5 / % possible all: 89.4 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 11.489 Å2
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Refinement step | Cycle: LAST / Resolution: 1.35→41.29 Å
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Refine LS restraints |
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