+Open data
-Basic information
Entry | Database: PDB / ID: 1fl9 | ||||||
---|---|---|---|---|---|---|---|
Title | THE YJEE PROTEIN | ||||||
Components | HYPOTHETICAL PROTEIN HI0065Hypothesis | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / nucleotide-binding fold / Structure 2 Function Project / S2F | ||||||
Function / homology | Function and homology information tRNA threonylcarbamoyladenosine modification / ATP binding / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | Haemophilus influenzae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.5 Å | ||||||
Authors | Teplyakov, A. / Gilliland, G.L. / Structure 2 Function Project (S2F) | ||||||
Citation | Journal: Proteins / Year: 2002 Title: Crystal structure of the YjeE protein from Haemophilus influenzae: a putative Atpase involved in cell wall synthesis Authors: Teplyakov, A. / Obmolova, G. / Tordova, M. / Thanki, N. / Bonander, N. / Eisenstein, E. / Howard, A.J. / Gilliland, G.L. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1fl9.cif.gz | 104.8 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1fl9.ent.gz | 81.5 KB | Display | PDB format |
PDBx/mmJSON format | 1fl9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fl/1fl9 ftp://data.pdbj.org/pub/pdb/validation_reports/fl/1fl9 | HTTPS FTP |
---|
-Related structure data
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
3 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 18268.768 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus influenzae (bacteria) / Plasmid: PLASMID T7-HIS TAG / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: P44492 #2: Chemical | #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.31 Å3/Da / Density % sol: 46.77 % | ||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.2 Details: 0.1M Tris, 1.5% PEG400, 1.5M ammonium sulfate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||
Crystal | *PLUS Density % sol: 48 % | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 1.01 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Apr 1, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.01 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→10 Å / Num. all: 132000 / Num. obs: 132000 / % possible obs: 95 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 8.2 % / Biso Wilson estimate: 42.4 Å2 / Rmerge(I) obs: 0.054 / Net I/σ(I): 21.5 |
Reflection shell | Resolution: 2.5→2.55 Å / Redundancy: 8 % / Rmerge(I) obs: 0.158 / Num. unique all: 1000 / % possible all: 90 |
Reflection | *PLUS Lowest resolution: 10 Å / Rmerge(I) obs: 0.054 |
Reflection shell | *PLUS Rmerge(I) obs: 0.158 |
-Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 2.5→10 Å / σ(F): 3 / σ(I): 0 / Stereochemistry target values: Engh & Huber
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→10 Å
| |||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 10 Å / Rfactor obs: 0.22 / Rfactor Rfree: 0.285 / Rfactor Rwork: 0.22 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
|