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Yorodumi- PDB-3icb: THE REFINED STRUCTURE OF VITAMIN D-DEPENDENT CALCIUM-BINDING PROT... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3icb | |||||||||
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Title | THE REFINED STRUCTURE OF VITAMIN D-DEPENDENT CALCIUM-BINDING PROTEIN FROM BOVINE INTESTINE. MOLECULAR DETAILS, ION BINDING, AND IMPLICATIONS FOR THE STRUCTURE OF OTHER CALCIUM-BINDING PROTEINS | |||||||||
Components | CALCIUM-BINDING PROTEIN | |||||||||
Keywords | CALCIUM-BINDING PROTEIN | |||||||||
Function / homology | Function and homology information vitamin D binding / calcium-dependent protein binding / collagen-containing extracellular matrix / calcium ion binding / extracellular space / cytoplasm Similarity search - Function | |||||||||
Biological species | Bos taurus (cattle) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 2.3 Å | |||||||||
Authors | Szebenyi, D.M.E. / Moffat, K. | |||||||||
Citation | Journal: J.Biol.Chem. / Year: 1986 Title: The refined structure of vitamin D-dependent calcium-binding protein from bovine intestine. Molecular details, ion binding, and implications for the structure of other calcium-binding proteins. Authors: Szebenyi, D.M. / Moffat, K. #1: Journal: Nature / Year: 1981 Title: Structure of Vitamin D-Dependent Calcium-Binding Protein from Bovine Intestine Authors: Szebenyi, D.M.E. / Obendorf, S.K. / Moffat, K. #2: Journal: J.Mol.Biol. / Year: 1975 Title: Preliminary Crystallographic Data for a Calcium Binding Protein from Bovine Intestine Authors: Moffat, K. / Fullmer, C.H. / Wasserman, R.H. #3: Journal: J.Biol.Chem. / Year: 1981 Title: The Amino Acid Sequence of Bovine Intestinal Calcium-Binding Protein Authors: Fullmer, C.S. / Wasserman, R.H. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3icb.cif.gz | 26.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3icb.ent.gz | 17.7 KB | Display | PDB format |
PDBx/mmJSON format | 3icb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3icb_validation.pdf.gz | 422.1 KB | Display | wwPDB validaton report |
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Full document | 3icb_full_validation.pdf.gz | 424.9 KB | Display | |
Data in XML | 3icb_validation.xml.gz | 6.1 KB | Display | |
Data in CIF | 3icb_validation.cif.gz | 7.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ic/3icb ftp://data.pdbj.org/pub/pdb/validation_reports/ic/3icb | 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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-Components
#1: Protein | Mass: 8510.556 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bos taurus (cattle) / References: UniProt: P02633 | ||||||
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#2: Chemical | #3: Chemical | ChemComp-SO4 / | #4: Water | ChemComp-HOH / | Compound details | THE MOLECULE CONTAINS TWO CALCIUM BINDING LOOPS - I-II (CB1) AND III-IV (CB2) COMPRISING RESIDUES ...THE MOLECULE CONTAINS TWO CALCIUM BINDING LOOPS - I-II (CB1) AND III-IV (CB2) COMPRISING | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.05 Å3/Da / Density % sol: 40.08 % |
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Crystal grow | *PLUS Method: vapor diffusion |
Components of the solutions | *PLUS Common name: ammonium sulfate |
-Data collection
Reflection | *PLUS Highest resolution: 2.3 Å |
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-Processing
Software | Name: PROLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.3→9 Å / Rfactor Rwork: 0.178 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→9 Å
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Refine LS restraints |
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Refinement | *PLUS Num. reflection obs: 2350 / Rfactor obs: 0.178 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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