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- PDB-4s3l: Crystal Structure of major pilin protein PitB from type II pilus ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4s3l | ||||||
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Title | Crystal Structure of major pilin protein PitB from type II pilus of Streptococcus pneumoniae | ||||||
![]() | Major Pilin Protein | ||||||
![]() | CELL ADHESION / Major pilin / Type II pilus / virulence / CNAB / IgG fold / IgG-rev fold / Pilin protein | ||||||
Function / homology | Streptococcal pilin isopeptide linker / Streptococcal pilin isopeptide linker superfamily / Spy0128-like isopeptide containing domain / Domain of unknown function DUF5979 / Domain of unknown function (DUF5979) / membrane / PitB![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Shaik, M.M. / Dessen, A. / Di Guilmi, A.M. | ||||||
![]() | ![]() Title: A Structural Snapshot of Type II Pilus Formation in Streptococcus pneumoniae. Authors: Shaik, M.M. / Lombardi, C. / Maragno Trindade, D. / Fenel, D. / Schoehn, G. / Di Guilmi, A.M. / Dessen, 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 | ![]() | 136.6 KB | Display | ![]() |
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PDB format | ![]() | 112.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 435.6 KB | Display | ![]() |
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Full document | ![]() | 447.3 KB | Display | |
Data in XML | ![]() | 26.4 KB | Display | |
Data in CIF | ![]() | 36.1 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 37197.891 Da / Num. of mol.: 2 / Fragment: UNP residues 46-386 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: Taiwan19F-14 / Gene: pitB / Plasmid: pet151 / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.57 Å3/Da / Density % sol: 65.54 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 7 Details: 3M NaCl, 0.1M HEPES, pH 7.0, VAPOR DIFFUSION, temperature 293K |
-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: 0.939 Å / Relative weight: 1 | ||||||||||||||||||
Reflection | Resolution: 2.8→54.21 Å / Num. obs: 25595 / % possible obs: 80 % / Observed criterion σ(F): 2.1 / Observed criterion σ(I): 2 / Redundancy: 4.8 % / Rmerge(I) obs: 0.195 / Net I/σ(I): 5.9 | ||||||||||||||||||
Reflection shell | Resolution: 2.8→2.95 Å / Redundancy: 4.9 % / Rmerge(I) obs: 0.583 / Mean I/σ(I) obs: 2.1 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→54.21 Å
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Refine LS restraints |
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LS refinement shell |
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