+Open data
-Basic information
Entry | Database: PDB / ID: 3a5i | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of the cytoplasmic domain of FlhA | ||||||
Components | Flagellar biosynthesis protein flhA | ||||||
Keywords | PROTEIN TRANSPORT / four domains / thioredoxin-like fold / Bacterial flagellum biogenesis / Bacterial flagellum protein export / Cell inner membrane / Cell membrane / Membrane / Transmembrane / Transport | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Salmonella typhimurium (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.8 Å | ||||||
Authors | Imada, K. / Saijo-Hamano, Y. / Shimada, M. / Namba, K. | ||||||
Citation | Journal: Mol.Microbiol. / Year: 2010 Title: Structure of the cytoplasmic domain of FlhA and implication for flagellar type III protein export Authors: Saijo-Hamano, Y. / Imada, K. / Minamino, T. / Kihara, M. / Shimada, M. / Kitao, A. / Namba, K. #1: Journal: Acta Crystallogr.,Sect.F / Year: 2005 Title: Crystallization and preliminary X-ray analysis of the C-terminal cytoplasmic domain of FlhA, a membrane-protein subunit of the bacterial flagellar type III protein-export apparatus Authors: Saijo-Hamano, Y. / Imada, K. / Minamino, T. / Kihara, M. / Macnab, R.M. / Namba, K. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 3a5i.cif.gz | 141.8 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb3a5i.ent.gz | 112.5 KB | Display | PDB format |
PDBx/mmJSON format | 3a5i.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a5/3a5i ftp://data.pdbj.org/pub/pdb/validation_reports/a5/3a5i | HTTPS FTP |
---|
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
Unit cell |
| ||||||||
Details | AUTHOR DETERMINED BIOLOGICAL UNIT: UNKNOWN |
-Components
#1: Protein | Mass: 43258.348 Da / Num. of mol.: 2 / Fragment: FlhAc, UNP residues 328-692 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / Strain: SJW1103 / Gene: flhA, STM1913 / Plasmid: pET19b / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 (DE3) pLysS / References: UniProt: P40729 |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
---|
-Sample preparation
Crystal |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 10-15% PEG300, 4-6% PEG8000, 0.1M Tris-HCl, 0.5mM EDTA, 10-15% glycerol, pH8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction |
| ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction source |
| ||||||||||||||||||
Detector |
| ||||||||||||||||||
Radiation |
| ||||||||||||||||||
Radiation wavelength |
| ||||||||||||||||||
Reflection | Resolution: 2.8→40.8 Å / Num. all: 37317 / Num. obs: 37317 / % possible obs: 99.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.9 % / Biso Wilson estimate: 85.2 Å2 / Rmerge(I) obs: 0.084 / Net I/σ(I): 13.8 | ||||||||||||||||||
Reflection shell | Resolution: 2.8→2.95 Å / Redundancy: 4.7 % / Rmerge(I) obs: 0.398 / Mean I/σ(I) obs: 3 / Num. unique all: 5343 / % possible all: 98.8 |
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MAD / Resolution: 2.8→40.8 Å / Rfactor Rfree error: 0.007 / Data cutoff high absF: 2106476.83 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||||||||||||||||||
Solvent computation | Solvent model: FLAT MODEL / Bsol: 29.0094 Å2 / ksol: 0.29557 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 75.2 Å2
| ||||||||||||||||||||||||||||||||||||
Refine analyze |
| ||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→40.8 Å
| ||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.8→2.98 Å / Rfactor Rfree error: 0.025 / Total num. of bins used: 6
| ||||||||||||||||||||||||||||||||||||
Xplor file |
|