+Open data
-Basic information
Entry | Database: PDB / ID: 1cbi | ||||||
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Title | APO-CELLULAR RETINOIC ACID BINDING PROTEIN I | ||||||
Components | CELLULAR RETINOIC ACID BINDING PROTEIN I | ||||||
Keywords | RETINOIC-ACID TRANSPORT | ||||||
Function / homology | Function and homology information RA biosynthesis pathway / retinoid binding / retinal binding / retinoic acid binding / retinol binding / fatty acid transport / fatty acid binding / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.7 Å | ||||||
Authors | Thompson, J.R. / Bratt, J.M. / Banaszak, L.J. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1995 Title: Crystal structure of cellular retinoic acid binding protein I shows increased access to the binding cavity due to formation of an intermolecular beta-sheet. Authors: Thompson, J.R. / Bratt, J.M. / Banaszak, L.J. #1: Journal: Structure / Year: 1994 Title: Crystal Structures of Cellular Retinoic Acid Binding Proteins I and II in Complex with All-Trans-Retinoic Acid and a Synthetic Retinoid Authors: Kleywegt, G.J. / Bergfors, T. / Senn, H. / Le Motte, P. / Gsell, B. / Shudo, K. / Jones, A.T. | ||||||
History |
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Remark 700 | SHEET CRABPI IS ACTUALLY A TEN-STRANDED BETA-BARREL. THIS IS REPRESENTED IN SHEET RECORDS BELOW BY ...SHEET CRABPI IS ACTUALLY A TEN-STRANDED BETA-BARREL. THIS IS REPRESENTED IN SHEET RECORDS BELOW BY AN ELEVEN-STRANDED SHEET. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cbi.cif.gz | 75.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1cbi.ent.gz | 57.7 KB | Display | PDB format |
PDBx/mmJSON format | 1cbi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1cbi_validation.pdf.gz | 370.1 KB | Display | wwPDB validaton report |
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Full document | 1cbi_full_validation.pdf.gz | 373.6 KB | Display | |
Data in XML | 1cbi_validation.xml.gz | 6.8 KB | Display | |
Data in CIF | 1cbi_validation.cif.gz | 10.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cb/1cbi ftp://data.pdbj.org/pub/pdb/validation_reports/cb/1cbi | HTTPS FTP |
-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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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.8722, -0.4867, 0.0495), Vector: Details | MTRIX THE TRANSFORMATIONS PRESENTED ON MTRIX RECORDS BELOW DESCRIBE NON-CRYSTALLOGRAPHIC RELATIONSHIPS AMONG THE VARIOUS DOMAINS IN THIS ENTRY. APPLYING THE APPROPRIATE MTRIX TRANSFORMATION TO THE RESIDUES LISTED FIRST WILL YIELD APPROXIMATE COORDINATES FOR THE RESIDUES LISTED SECOND. APPLIED TO TRANSFORMED TO MTRIX RESIDUES RESIDUES RMSD | |
-Components
#1: Protein | Mass: 15480.392 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: APO FORM / Source: (gene. exp.) Mus musculus (house mouse) / Gene: MOUSE CRABPI / Plasmid: PMON2670 / Gene (production host): MOUSE CRABPI / Production host: Escherichia coli (E. coli) / References: UniProt: P62965 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 4.06 Å3/Da / Density % sol: 69.69 % | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 18 ℃ / pH: 5 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 294 K |
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Diffraction source | Wavelength: 1.5418 |
Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Nov 16, 1993 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 12365 / % possible obs: 90.9 % / Observed criterion σ(I): 0 / Redundancy: 23 % / Rmerge(I) obs: 0.109 |
Reflection | *PLUS Highest resolution: 2.7 Å / Lowest resolution: 13 Å / Rmerge(I) obs: 0.109 |
Reflection shell | *PLUS Highest resolution: 2.7 Å / Lowest resolution: 2.9 Å / % possible obs: 51 % / Redundancy: 5.2 % / Rmerge(I) obs: 0.371 / Mean I/σ(I) obs: 1.69 |
-Processing
Software |
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Refinement | Resolution: 2.7→13 Å / σ(F): 2
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Displacement parameters | Biso mean: 14 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.3 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.7→13 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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