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Yorodumi- PDB-1hxi: AN UNEXPECTED EXTENDED CONFORMATION FOR THE THIRD TPR MOTIF OF TH... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1hxi | ||||||
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Title | AN UNEXPECTED EXTENDED CONFORMATION FOR THE THIRD TPR MOTIF OF THE PEROXIN PEX5 FROM TRYPANOSOMA BRUCEI | ||||||
Components | PEROXISOME TARGETING SIGNAL 1 RECEPTOR PEX5 | ||||||
Keywords | TRANSPORT PROTEIN / alpha helical | ||||||
Function / homology | Function and homology information nucleoside transmembrane transporter activity / peroxisome / membrane => GO:0016020 Similarity search - Function | ||||||
Biological species | Trypanosoma brucei (eukaryote) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.6 Å | ||||||
Authors | Kumar, A. / Roach, C. / Hirsh, I.S. / Turley, S. / deWalque, S. / Michels, P.A.M. / Hol, W.G.J. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2001 Title: An unexpected extended conformation for the third TPR motif of the peroxin PEX5 from Trypanosoma brucei. Authors: Kumar, A. / Roach, C. / Hirsh, I.S. / Turley, S. / deWalque, S. / Michels, P.A. / Hol, W.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1hxi.cif.gz | 33.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1hxi.ent.gz | 25.9 KB | Display | PDB format |
PDBx/mmJSON format | 1hxi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hx/1hxi ftp://data.pdbj.org/pub/pdb/validation_reports/hx/1hxi | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 13713.620 Da / Num. of mol.: 1 / Fragment: FIRST THREE TPR MOTIFS Source method: isolated from a genetically manipulated source Source: (gene. exp.) Trypanosoma brucei (eukaryote) / Gene: PEX5 / Plasmid: PET26B / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q9U763, UniProt: Q9U7C3*PLUS |
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#2: Chemical | ChemComp-MG / |
#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: 3.118 Å3/Da / Density % sol: 61.7 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: Imidazole, MgCl2, IPTG, DMSO, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ | ||||||||||||||||||||||||||||||
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: ALS / Beamline: 5.0.2 / Wavelength: 0.9798, 0.9800, 0.9574 | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Apr 17, 2000 | ||||||||||||
Radiation | Monochromator: synchrotron / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.6→20 Å / Num. all: 23687 / Num. obs: 23237 / % possible obs: 98.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 5.8 % / Biso Wilson estimate: 20.049 Å2 / Rmerge(I) obs: 0.079 / Net I/σ(I): 17.3 | ||||||||||||
Reflection shell | Resolution: 1.6→20 Å / Redundancy: 5.6 % / Rmerge(I) obs: 0.502 / % possible all: 99.7 | ||||||||||||
Reflection shell | *PLUS % possible obs: 99.7 % / Mean I/σ(I) obs: 3.6 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.6→20 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: REFMAC
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Displacement parameters | Biso mean: 20.5 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.6→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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