+Open data
-Basic information
Entry | Database: PDB / ID: 1lfo | ||||||
---|---|---|---|---|---|---|---|
Title | LIVER FATTY ACID BINDING PROTEIN-OLEATE COMPLEX | ||||||
Components | LIVER FATTY ACID BINDING PROTEIN | ||||||
Keywords | INTRACELLULAR LIPID TRANSPORT PROTEIN / FATTY ACID BINDING PROTEIN | ||||||
Function / homology | Function and homology information Regulation of lipid metabolism by PPARalpha / Triglyceride catabolism / lysophospholipid:sodium symporter activity / Heme degradation / Cytoprotection by HMOX1 / oleic acid binding / apical cortex / positive regulation of fatty acid beta-oxidation / bile acid binding / intestinal absorption ...Regulation of lipid metabolism by PPARalpha / Triglyceride catabolism / lysophospholipid:sodium symporter activity / Heme degradation / Cytoprotection by HMOX1 / oleic acid binding / apical cortex / positive regulation of fatty acid beta-oxidation / bile acid binding / intestinal absorption / long-chain fatty acid transmembrane transporter activity / heterocyclic compound binding / antioxidant activity / peroxisomal matrix / long-chain fatty acid transport / fatty acid transport / fatty acid binding / phospholipid binding / cellular response to hydrogen peroxide / cellular response to hypoxia / chromatin binding / negative regulation of apoptotic process / protein-containing complex / nucleoplasm / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.3 Å | ||||||
Authors | Thompson, J. / Winter, N. / Terwey, D. / Bratt, J. / Banaszak, L. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 1997 Title: The crystal structure of the liver fatty acid-binding protein. A complex with two bound oleates. Authors: Thompson, J. / Winter, N. / Terwey, D. / Bratt, J. / Banaszak, L. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1lfo.cif.gz | 36.5 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1lfo.ent.gz | 27.7 KB | Display | PDB format |
PDBx/mmJSON format | 1lfo.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lf/1lfo ftp://data.pdbj.org/pub/pdb/validation_reports/lf/1lfo | HTTPS FTP |
---|
-Related structure data
Related structure data | 1adlS 1cbrS 1crbS 1hmrS 1ifcS 1opbS S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 14333.608 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: AMINO-TERMINAL INITIATOR METHIONINE AND MODIFIED CYSTEINE 69 PRESENT Source: (gene. exp.) Rattus norvegicus (Norway rat) / Organ: LIVER / Plasmid: PJBL2 / Production host: Escherichia coli (E. coli) / Strain (production host): K12 H1 / References: UniProt: P02692 | ||||||
---|---|---|---|---|---|---|---|
#2: Chemical | #3: Chemical | ChemComp-BEO / | #4: Chemical | ChemComp-UNX / | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 55 % Description: DATA IN THE 2.3 - 2.1 ANGSTROM RANGE WAS NOT USED DUE TO ITS POOR QUALITY. | ||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Method: vapor diffusion, hanging drop / pH: 5.6 Details: HANGING DROP VAPOR DIFFUSION EXPERIMENT 1 ML WELL: 3 M AMMONIUM SULFATE, 200 MM LISO4, 100 MM CITRATE, AT A PH OF 5.6 STOCK: 13 MG/ML LFABP-OLEATE COMPLEX 10 MICROLITER DROP: 1:1 MIXTURE OF ...Details: HANGING DROP VAPOR DIFFUSION EXPERIMENT 1 ML WELL: 3 M AMMONIUM SULFATE, 200 MM LISO4, 100 MM CITRATE, AT A PH OF 5.6 STOCK: 13 MG/ML LFABP-OLEATE COMPLEX 10 MICROLITER DROP: 1:1 MIXTURE OF STOCK AND WELL, vapor diffusion - hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 287 K |
---|---|
Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH2R / Wavelength: 1.5418 |
Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Aug 26, 1991 |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→38.8 Å / Num. obs: 8640 / % possible obs: 79.3 % / Observed criterion σ(I): 0 / Redundancy: 5.3 % / Biso Wilson estimate: 36.8 Å2 / Rsym value: 0.1 / Net I/σ(I): 10.7 |
Reflection shell | Resolution: 2.1→2.3 Å / Mean I/σ(I) obs: 0.89 / Rsym value: 0.535 / % possible all: 33.2 |
Reflection | *PLUS Rmerge(I) obs: 0.1 |
Reflection shell | *PLUS % possible obs: 33.2 % / Num. unique obs: 940 / Rmerge(I) obs: 0.535 |
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: SUPERIMPOSED POLYALANINE COMPOSITE STRUCTURE OF 1ADL, 1CBR, 1CRB, 1OPB, 1IFC, 1HMR Resolution: 2.3→8 Å / Rfactor Rfree error: 0.013 / Data cutoff high absF: 10000000 / Data cutoff low absF: 0.001 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 1
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 40.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→8 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.3→2.33 Å / Rfactor Rfree error: 0.131 / Total num. of bins used: 30
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Xplor file |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|