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Yorodumi- PDB-1vyg: schistosoma mansoni fatty acid binding protein in complex with ar... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1vyg | ||||||
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Title | schistosoma mansoni fatty acid binding protein in complex with arachidonic acid | ||||||
Components | FATTY ACID BINDING PROTEINFatty acid-binding protein | ||||||
Keywords | TRANSPORT PROTEIN / FATTY ACID BINDING PROTEIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | SCHISTOSOMA MANSONI (invertebrata) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.4 Å | ||||||
Authors | Angelucci, F. / Johnson, K.A. / Baiocco, P. / Miele, A.E. / Bellelli, A. | ||||||
Citation | Journal: Biochemistry / Year: 2004 Title: Schistosoma Mansoni Fatty Acid Binding Protein: Specificity and Functional Control as Revealed by Crystallographic Structure Authors: Angelucci, F. / Johnson, K.A. / Baiocco, P. / Miele, A.E. / Brunori, M. / Valle, C. / Vigorosi, F. / Troiani, A.R. / Liberti, P. / Cioli, D. / Klinkert, M.Q. / Bellelli, A. | ||||||
History |
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Remark 650 | HELIX THESE HELIX BOUNDARIES WERE PROVIDED BY THE DEPOSITOR HELIX 1 PHE A 16 LEU A 23 HELIX 2 ALA ... HELIX THESE HELIX BOUNDARIES WERE PROVIDED BY THE DEPOSITOR HELIX 1 PHE A 16 LEU A 23 HELIX 2 ALA A 28 THR A 35 | ||||||
Remark 700 | SHEET THESE STRAND BOUNDARIES WERE PROVIDED BY THE DEPOSITOR STRAND A GLY A 6 HIS A 14 STRAND B ... SHEET THESE STRAND BOUNDARIES WERE PROVIDED BY THE DEPOSITOR STRAND A GLY A 6 HIS A 14 STRAND B THR A 39 ASP A 45 STRAND C LYS A 48 SER A 55 STRAND D LYS A 58 CYS A 62 STRAND E PHE A 70 LYS A 73 STRAND F ASN A 79 LYS A 86 STRAND G LYS A 91 ASP A 98 STRAND H ASN A 101 ASP A 110 STRAND I THR A 113 VAL A 120 STRAND J ILE A 126 ARG A 131 |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1vyg.cif.gz | 41.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1vyg.ent.gz | 28.2 KB | Display | PDB format |
PDBx/mmJSON format | 1vyg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vy/1vyg ftp://data.pdbj.org/pub/pdb/validation_reports/vy/1vyg | HTTPS FTP |
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-Related structure data
Related structure data | 1vyfSC S: Starting model for refinement C: citing same article (ref.) |
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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: 15010.914 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: 2 ADDITIONAL AMINO ACIDS AT THE N-TERMINUS / Source: (gene. exp.) SCHISTOSOMA MANSONI (invertebrata) / Strain: BRAZILIAN BH / Description: CDNA / Plasmid: PDEST17 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P29498 |
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#2: Chemical | ChemComp-ACD / |
#3: Water | ChemComp-HOH / |
Sequence details | 2 EXTRA AMINO ACIDS AT THE N-TERMINUS |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.28 Å3/Da / Density % sol: 37.1 % |
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Crystal grow | pH: 6 Details: 30% PEG 8K,0.1M MES, 0.2M NA ACETATE, 5MM BME, pH 6.00 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ELETTRA / Beamline: 5.2R / Wavelength: 1 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Feb 15, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→25 Å / Num. obs: 5746 / % possible obs: 95.5 % / Redundancy: 5.5 % / Biso Wilson estimate: 55.07 Å2 / Rmerge(I) obs: 0.067 / Net I/σ(I): 19.6 |
Reflection shell | Resolution: 2.4→2.49 Å / Redundancy: 5.5 % / Rmerge(I) obs: 0.17 / Mean I/σ(I) obs: 8.8 / % possible all: 86.9 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDBE ENTRY 1VYF Resolution: 2.4→20 Å / SU ML: 0.215 / Cross valid method: THROUGHOUT / ESU R: 0.786 / ESU R Free: 0.334
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Displacement parameters | Biso mean: 45.801 Å2
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Refinement step | Cycle: LAST / Resolution: 2.4→20 Å
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