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Open data
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Basic information
Entry | Database: PDB / ID: 4c2d | ||||||
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Title | Crystal structure of the protease CtpB in an active state | ||||||
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![]() | HYDROLASE/PEPTIDE / HYDROLASE-PEPTIDE COMPLEX / PROTEOLYTIC TUNNEL | ||||||
Function / homology | ![]() C-terminal processing peptidase / peptide metabolic process / sporulation resulting in formation of a cellular spore / peptide binding / peptidase activity / outer membrane-bounded periplasmic space / endopeptidase activity / serine-type endopeptidase activity / signal transduction / protein homodimerization activity ...C-terminal processing peptidase / peptide metabolic process / sporulation resulting in formation of a cellular spore / peptide binding / peptidase activity / outer membrane-bounded periplasmic space / endopeptidase activity / serine-type endopeptidase activity / signal transduction / protein homodimerization activity / proteolysis / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Mastny, M. / Heuck, A. / Kurzbauer, R. / Clausen, T. | ||||||
![]() | ![]() Title: Ctpb Assembles a Gated Protease Tunnel Regulating Cell-Cell Signaling During Spore Formation in Bacillus Subtilis. Authors: Mastny, M. / Heuck, A. / Kurzbauer, R. / Heiduk, A. / Boisguerin, P. / Volkmer, R. / Ehrmann, M. / Rodrigues, C.D.A. / Rudner, D.Z. / Clausen, T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 334.9 KB | Display | ![]() |
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PDB format | ![]() | 273 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 508.9 KB | Display | ![]() |
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Full document | ![]() | 567.9 KB | Display | |
Data in XML | ![]() | 67.3 KB | Display | |
Data in CIF | ![]() | 91.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4c2cSC ![]() 4c2eC ![]() 4c2fC ![]() 4c2gC ![]() 4c2hC S: Starting model for refinement C: citing same article ( |
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Similar 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: 49740.480 Da / Num. of mol.: 4 / Fragment: RESIDUES 44-480 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Plasmid: PET21 / Production host: ![]() ![]() References: UniProt: O35002, C-terminal processing peptidase #2: Protein/peptide | Mass: 518.562 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Details: PEPTIDE CO-PURIFIED FROM E. COLI EXPRESSION / Source: (natural) ![]() ![]() #3: Protein/peptide | | Mass: 456.492 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: PEPTIDE CO-PURIFIED FROM E. COLI EXPRESSION / Source: (natural) ![]() ![]() #4: Protein/peptide | Mass: 415.440 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Details: PEPTIDE CO-PURIFIED FROM E. COLI EXPRESSION / Source: (natural) ![]() ![]() #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.18 Å3/Da / Density % sol: 61.3 % / Description: NONE |
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Crystal grow | Details: 13% PEG 3350, 0.1 M NA-MALONATE, 0.1 M HEPES PH 7.8 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→40 Å / Num. obs: 79111 / % possible obs: 100 % / Observed criterion σ(I): -10 / Redundancy: 6.8 % / Rmerge(I) obs: 0.14 / Net I/σ(I): 12.6 |
Reflection shell | Resolution: 2.6→2.74 Å / Redundancy: 6.6 % / Rmerge(I) obs: 0.81 / Mean I/σ(I) obs: 2.1 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 4C2C Resolution: 2.7→20 Å / Data cutoff high absF: 10000 / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 60.6378 Å2 / ksol: 0.33 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.7→20 Å
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Refine LS restraints |
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