+Open data
-Basic information
Entry | Database: PDB / ID: 1hxr | ||||||
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Title | CRYSTAL STRUCTURE OF MSS4 AT 1.65 ANGSTROMS | ||||||
Components | GUANINE NUCLEOTIDE EXCHANGE FACTOR MSS4 | ||||||
Keywords | METAL BINDING PROTEIN / nucleotide exchange factor / Rab GTPase / membrane trafficking / Zn binding site | ||||||
Function / homology | Function and homology information post-Golgi vesicle-mediated transport / small GTPase-mediated signal transduction / guanyl-nucleotide exchange factor activity / protein transport / zinc ion binding / membrane / cytosol Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / SIR/Molecular Replacement / Resolution: 1.65 Å | ||||||
Authors | Zhu, Z. / Dumas, J.J. / Lietzke, S.E. / Lambright, D.G. | ||||||
Citation | Journal: Biochemistry / Year: 2001 Title: A helical turn motif in Mss4 is a critical determinant of Rab binding and nucleotide release. Authors: Zhu, Z. / Dumas, J.J. / Lietzke, S.E. / Lambright, D.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1hxr.cif.gz | 59.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1hxr.ent.gz | 41.6 KB | Display | PDB format |
PDBx/mmJSON format | 1hxr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hx/1hxr ftp://data.pdbj.org/pub/pdb/validation_reports/hx/1hxr | HTTPS FTP |
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-Related structure data
Related structure data | 1fwqS 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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Unit cell |
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-Components
#1: Protein | Mass: 12999.825 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rattus norvegicus (Norway rat) / Plasmid: PET15B / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q08326 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 1.98 Å3/Da / Density % sol: 37.94 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 14% PEG 6000, 50 mM Tris, 50 mM Mg(OAc)2, 10% glycerol, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jan 8, 1999 / Details: mirrors |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.65→20 Å / Num. all: 24609 / Num. obs: 24609 / % possible obs: 99.6 % / Observed criterion σ(I): -3 / Redundancy: 13 % / Biso Wilson estimate: 16.4 Å2 / Rsym value: 0.065 / Net I/σ(I): 17.1 |
Reflection shell | Resolution: 1.65→7 Å / Redundancy: 3 % / Mean I/σ(I) obs: 3.7 / Num. unique all: 1993 / Rsym value: 0.282 / % possible all: 97.2 |
Reflection | *PLUS Rmerge(I) obs: 0.065 |
Reflection shell | *PLUS % possible obs: 97.2 % / Rmerge(I) obs: 0.282 |
-Processing
Software |
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Refinement | Method to determine structure: SIR/Molecular Replacement Starting model: PDB entry 1FWQ Resolution: 1.65→7 Å / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.65→7 Å
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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