+Open data
-Basic information
Entry | Database: PDB / ID: 1jb5 | ||||||
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Title | CRYSTAL STRUCTURE OF NTF2 M118E MUTANT | ||||||
Components | NUCLEAR TRANSPORT FACTOR 2 | ||||||
Keywords | PROTEIN TRANSPORT / NTF2 / Transport | ||||||
Function / homology | Function and homology information negative regulation of vascular endothelial growth factor production / protein localization to nuclear pore / nuclear pore central transport channel / structural constituent of nuclear pore / nuclear outer membrane / nuclear inner membrane / nuclear import signal receptor activity / mRNA transport / protein export from nucleus / small GTPase binding ...negative regulation of vascular endothelial growth factor production / protein localization to nuclear pore / nuclear pore central transport channel / structural constituent of nuclear pore / nuclear outer membrane / nuclear inner membrane / nuclear import signal receptor activity / mRNA transport / protein export from nucleus / small GTPase binding / positive regulation of protein import into nucleus / protein import into nucleus / nuclear membrane / nucleoplasm / identical protein binding / cytosol Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.3 Å | ||||||
Authors | Chaillan-Huntington, C. / Butler, P.J. / Huntington, J.A. / Akin, D. / Feldherr, C. / Stewart, M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2001 Title: NTF2 monomer-dimer equilibrium. Authors: Chaillan-Huntington, C. / Butler, P.J. / Huntington, J.A. / Akin, D. / Feldherr, C. / Stewart, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1jb5.cif.gz | 61.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1jb5.ent.gz | 46.1 KB | Display | PDB format |
PDBx/mmJSON format | 1jb5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1jb5_validation.pdf.gz | 370.4 KB | Display | wwPDB validaton report |
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Full document | 1jb5_full_validation.pdf.gz | 381.4 KB | Display | |
Data in XML | 1jb5_validation.xml.gz | 7.6 KB | Display | |
Data in CIF | 1jb5_validation.cif.gz | 11.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jb/1jb5 ftp://data.pdbj.org/pub/pdb/validation_reports/jb/1jb5 | HTTPS FTP |
-Related structure data
Related structure data | 1jb2C 1jb4SC C: citing same article (ref.) 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: 14475.319 Da / Num. of mol.: 2 / Mutation: M118E Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rattus norvegicus (Norway rat) / Production host: Escherichia coli (E. coli) / References: UniProt: P61972 #2: Water | ChemComp-HOH / | |
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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: 1.88 Å3/Da / Density % sol: 34.5 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 4.5 Details: PEG, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SRS / Beamline: PX7.2 / Wavelength: 1.488 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.488 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→30 Å / Num. all: 9197 / Num. obs: 9197 / % possible obs: 96.2 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 2.5 % / Rmerge(I) obs: 0.098 / Net I/σ(I): 9.6 |
Reflection shell | Resolution: 2.3→2.38 Å / Redundancy: 2 % / Rmerge(I) obs: 0.272 / % possible all: 96.2 |
Reflection | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 30 Å / Num. measured all: 73003 |
Reflection shell | *PLUS Highest resolution: 2.3 Å / % possible obs: 96.2 % / Mean I/σ(I) obs: 2.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1JB4 Resolution: 2.3→30 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Ergh & Huber
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Displacement parameters | Biso mean: 28 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→30 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 30 Å / σ(F): 0 / % reflection Rfree: 10 % | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 28 Å2 | |||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_deg / Dev ideal: 1.3 |