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Yorodumi- PDB-2dnw: Solution structure of RSGI RUH-059, an ACP domain of acyl carrier... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2dnw | ||||||
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Title | Solution structure of RSGI RUH-059, an ACP domain of acyl carrier protein, mitochondrial [Precursor] from human cDNA | ||||||
Components | Acyl carrier protein | ||||||
Keywords | TRANSPORT PROTEIN / acyl carrier protein / ACP / fatty acid biosynthesis / mitochondria / NADH:ubiquinone oxidereductase / structural genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information protein lipoylation / Mitochondrial Fatty Acid Beta-Oxidation / Protein lipoylation / iron-sulfur cluster assembly complex / mitochondrial large ribosomal subunit binding / [2Fe-2S] cluster assembly / iron-sulfur cluster assembly / acyl binding / Complex I biogenesis / acyl carrier activity ...protein lipoylation / Mitochondrial Fatty Acid Beta-Oxidation / Protein lipoylation / iron-sulfur cluster assembly complex / mitochondrial large ribosomal subunit binding / [2Fe-2S] cluster assembly / iron-sulfur cluster assembly / acyl binding / Complex I biogenesis / acyl carrier activity / Respiratory electron transport / mitochondrial respiratory chain complex I assembly / : / mitochondrial electron transport, NADH to ubiquinone / proton motive force-driven mitochondrial ATP synthesis / fatty acid binding / mitochondrial membrane / aerobic respiration / fatty acid biosynthetic process / mitochondrial inner membrane / mitochondrial matrix / calcium ion binding / mitochondrion / nucleoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Abe, T. / Hirota, H. / Kurosaki, C. / Yoshida, M. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structure of RSGI RUH-059, an ACP domain of acyl carrier protein, mitochondrial [Precursor] from human cDNA Authors: Abe, T. / Hirota, H. / Kurosaki, C. / Yoshida, M. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2dnw.cif.gz | 582.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2dnw.ent.gz | 490.1 KB | Display | PDB format |
PDBx/mmJSON format | 2dnw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2dnw_validation.pdf.gz | 344.9 KB | Display | wwPDB validaton report |
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Full document | 2dnw_full_validation.pdf.gz | 503.9 KB | Display | |
Data in XML | 2dnw_validation.xml.gz | 37.3 KB | Display | |
Data in CIF | 2dnw_validation.cif.gz | 57.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/dn/2dnw ftp://data.pdbj.org/pub/pdb/validation_reports/dn/2dnw | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 10968.360 Da / Num. of mol.: 1 / Fragment: acyl carrier protein Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: Cell-free protein synthesis / Gene: NDUFAB1 / Plasmid: P050704-29 / Production host: Cell free synthesis / References: UniProt: O14561 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.91mM RSGI RUH-059 U-15N, 13C; 20mM d-Tris-HCl; 1mM d-DTT; 0.02% NaN3; 10% D2O, 90% H2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 120mM / pH: 7 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: JEOL ECA / Manufacturer: JEOL / Model: ECA / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy, target function | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function, structures with the lowest energy, structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 20 |