+Open data
-Basic information
Entry | Database: PDB / ID: 5lnl | ||||||
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Title | Crystal structure of Hsf 1608-1749 putative domain 1 | ||||||
Components | Hsf | ||||||
Keywords | CELL ADHESION / Haemophilus influenzae / trimeric autotransporter / Adhesin | ||||||
Function / homology | Function and homology information cell outer membrane / protein transport / membrane => GO:0016020 / cell surface Similarity search - Function | ||||||
Biological species | Haemophilus influenzae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.3 Å | ||||||
Authors | Thomsen, M. / Wright, J. / Ridley, J. / Goldman, A. | ||||||
Citation | Journal: Acta Crystallogr F Struct Biol Commun / Year: 2017 Title: The crystal structure of PD1, a Haemophilus surface fibril domain. Authors: Wright, J. / Thomsen, M. / Kolodziejczyk, R. / Ridley, J. / Sinclair, J. / Carrington, G. / Singh, B. / Riesbeck, K. / Goldman, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5lnl.cif.gz | 210.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5lnl.ent.gz | 168.2 KB | Display | PDB format |
PDBx/mmJSON format | 5lnl.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ln/5lnl ftp://data.pdbj.org/pub/pdb/validation_reports/ln/5lnl | HTTPS FTP |
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-Related structure data
Related structure data | 3emiS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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Unit cell |
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-Components
#1: Protein | Mass: 15960.483 Da / Num. of mol.: 9 / Fragment: UNP residues 1608-1749 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus influenzae (bacteria) / Gene: hsf / Production host: Escherichia coli BL21(DE3) (bacteria) / Variant (production host): star / References: UniProt: P71401 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.83 Å3/Da / Density % sol: 56.54 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 3.9 Details: 0.75 M LiCl, 0.1 M Sodium citrate buffer pH 3.9, 17.6 % (w/v) PEG6000 |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I03 / Wavelength: 0.97961 Å | ||||||||||||||||||
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Feb 20, 2016 | ||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||
Radiation wavelength | Wavelength: 0.97961 Å / Relative weight: 1 | ||||||||||||||||||
Reflection | Resolution: 3.3→29.6 Å / Num. obs: 24219 / % possible obs: 97.7 % / Redundancy: 2.1 % / Biso Wilson estimate: 62.87 Å2 / CC1/2: 0.962 / Rmerge(I) obs: 0.333 / Rpim(I) all: 0.286 / Rrim(I) all: 0.441 / Net I/σ(I): 2.7 / Num. measured all: 50038 / Scaling rejects: 8 | ||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 3EMI Resolution: 3.3→29.6 Å / Cross valid method: FREE R-VALUE Details: automatic NCS-torsion and secondary structure restraints of PHENIX have been applied during refinement
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Displacement parameters | Biso mean: 58.9 Å2 | ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.3→29.6 Å
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