+Open data
-Basic information
Entry | Database: PDB / ID: 1ay7 | ||||||
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Title | RIBONUCLEASE SA COMPLEX WITH BARSTAR | ||||||
Components |
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Keywords | COMPLEX (ENZYME/INHIBITOR) / RIBONUCLEASE / INHIBITOR / STREPTOMYCES AUREOFACIENS / COMPLEX (ENZYME-INHIBITOR) / COMPLEX (ENZYME-INHIBITOR) complex | ||||||
Function / homology | Function and homology information ribonuclease T1 activity / ribonuclease T1 / RNA endonuclease activity / lyase activity / RNA binding / extracellular region / cytoplasm Similarity search - Function | ||||||
Biological species | Streptomyces aureofaciens (bacteria) Bacillus amyloliquefaciens (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.7 Å | ||||||
Authors | Sevcik, J. / Urbanikova, L. / Dauter, Z. / Wilson, K.S. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1998 Title: Recognition of RNase Sa by the inhibitor barstar: structure of the complex at 1.7 A resolution. Authors: Sevcik, J. / Urbanikova, L. / Dauter, Z. / Wilson, K.S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ay7.cif.gz | 50.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ay7.ent.gz | 38.9 KB | Display | PDB format |
PDBx/mmJSON format | 1ay7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ay7_validation.pdf.gz | 423.8 KB | Display | wwPDB validaton report |
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Full document | 1ay7_full_validation.pdf.gz | 431.5 KB | Display | |
Data in XML | 1ay7_validation.xml.gz | 12.3 KB | Display | |
Data in CIF | 1ay7_validation.cif.gz | 17.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ay/1ay7 ftp://data.pdbj.org/pub/pdb/validation_reports/ay/1ay7 | HTTPS FTP |
-Related structure data
Related structure data | 1brsS 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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Unit cell |
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-Components
#1: Protein | Mass: 10582.492 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptomyces aureofaciens (bacteria) / Plasmid: PMT1126 / Production host: Escherichia coli (E. coli) / Strain (production host): XL1-BLUE / References: UniProt: P05798, EC: 3.1.27.3 |
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#2: Protein | Mass: 10221.543 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: BARNASE INHIBITOR / Source: (gene. exp.) Bacillus amyloliquefaciens (bacteria) / Plasmid: PMT1126 / Production host: Escherichia coli (E. coli) / Strain (production host): XL1-BLUE / References: UniProt: P11540 |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.35 Å3/Da / Density % sol: 69 % | |||||||||||||||||||||||||
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Crystal grow | pH: 7 / Details: pH 7.0 | |||||||||||||||||||||||||
Crystal | *PLUS | |||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.2 / Method: vapor diffusion | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X31 / Wavelength: 0.95 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 1, 1996 / Details: MIRRORS |
Radiation | Monochromator: SI(111) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.95 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→25 Å / Num. obs: 27413 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 4.7 % / Biso Wilson estimate: 20 Å2 / Rmerge(I) obs: 0.046 / Rsym value: 0.046 / Net I/σ(I): 27.3 |
Reflection shell | Resolution: 1.7→1.72 Å / Redundancy: 4.2 % / Rmerge(I) obs: 0.308 / Mean I/σ(I) obs: 3.7 / Rsym value: 0.308 / % possible all: 99.8 |
Reflection | *PLUS Num. all: 27413 / Num. obs: 22844 / Num. measured all: 118438 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1BRS Resolution: 1.7→25 Å / Cross valid method: FREE R / σ(F): 0 Details: ESTIMATED COORDINATE ERROR. ESD FROM CRUICKSHANK (A) : 0.078 ESD FROM SIGMAA (A) : 0.061
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Displacement parameters | Biso mean: 24.8 Å2
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Refine analyze | Luzzati sigma a obs: 0.06 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.7→25 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.19 / Rfactor Rwork: 0.16 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |