+Open data
-Basic information
Entry | Database: PDB / ID: 4nsc | ||||||
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Title | Crystal Structure of CBARA1 in the Apo-form | ||||||
Components | Calcium uptake protein 1, mitochondrial | ||||||
Keywords | Calcium Binding protein / EF-hand | ||||||
Function / homology | Function and homology information regulation of cellular hyperosmotic salinity response / Processing of SMDT1 / mitochondrial calcium ion transmembrane transport / uniplex complex / calcium import into the mitochondrion / Mitochondrial calcium ion transport / positive regulation of mitochondrial calcium ion concentration / mitochondrial calcium ion homeostasis / calcium ion import / calcium channel complex ...regulation of cellular hyperosmotic salinity response / Processing of SMDT1 / mitochondrial calcium ion transmembrane transport / uniplex complex / calcium import into the mitochondrion / Mitochondrial calcium ion transport / positive regulation of mitochondrial calcium ion concentration / mitochondrial calcium ion homeostasis / calcium ion import / calcium channel complex / mitochondrial membrane / protein homooligomerization / defense response / mitochondrial intermembrane space / mitochondrial inner membrane / protein heterodimerization activity / calcium ion binding / mitochondrion / identical protein binding Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 3.2 Å | ||||||
Authors | Wang, L. / Yang, X. / Li, S. / Shen, Y. | ||||||
Citation | Journal: Embo J. / Year: 2014 Title: Structural and mechanistic insights into MICU1 regulation of mitochondrial calcium uptake. Authors: Wang, L. / Yang, X. / Li, S. / Wang, Z. / Liu, Y. / Feng, J. / Zhu, Y. / Shen, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4nsc.cif.gz | 386.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4nsc.ent.gz | 313.6 KB | Display | PDB format |
PDBx/mmJSON format | 4nsc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ns/4nsc ftp://data.pdbj.org/pub/pdb/validation_reports/ns/4nsc | HTTPS FTP |
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-Related 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: 46342.980 Da / Num. of mol.: 6 / Fragment: UNP residues 97-476 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: MICU1, CALC, CBARA1 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9BPX6 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.59 Å3/Da / Density % sol: 52.58 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 8% PEG 3350 and 0.075 M ammonium citrate tribasic pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 0.9791 Å |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Sep 25, 2011 |
Radiation | Monochromator: Si 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 3.2→50 Å / Num. all: 46641 / Num. obs: 44146 / % possible obs: 94.6 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 6.2 % |
Reflection shell | Resolution: 3.2→3.4 Å / % possible all: 69 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 3.2→36.72 Å / Rfactor Rfree error: 0.007 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2 / Stereochemistry target values: Engh & Huber / Details: BULK SOLVENT MODEL USED
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Displacement parameters | Biso mean: 69.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3.2→36.72 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: NONE | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 3.2→3.4 Å / Rfactor Rfree error: 0.025 / Total num. of bins used: 6
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