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Yorodumi- PDB-1xhj: Solution Structure Of The Staphylococcus Epidermidis Protein SE06... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1xhj | ||||||
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Title | Solution Structure Of The Staphylococcus Epidermidis Protein SE0630. Northest Structural Genomics Consortium Target SeR8. | ||||||
Components | Nitrogen Fixation Protein NifU | ||||||
Keywords | METAL BINDING PROTEIN / Alpha-beta / NifU-like / Structural Genomics / Protein Structure Initiative / NESG / PSI / Northeast Structural Genomics Consortium | ||||||
Function / homology | Function and homology information iron-sulfur cluster assembly / iron-sulfur cluster binding / iron ion binding Similarity search - Function | ||||||
Biological species | Staphylococcus epidermidis (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Baran, M.C. / Huang, Y.P. / Acton, T. / Xiao, R. / Montelione, G.T. / Northeast Structural Genomics Consortium (NESG) | ||||||
Citation | Journal: To be Published Title: Solution Structure Of The Staphylococcus Epidermidis Protein SE0630. Northest Strucutral Genomics Consortium Target SeR8. Authors: Baran, M.C. / Huang, Y.P. / Acton, T. / Xiao, R. / Montelione, G.T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1xhj.cif.gz | 270.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1xhj.ent.gz | 224 KB | Display | PDB format |
PDBx/mmJSON format | 1xhj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xh/1xhj ftp://data.pdbj.org/pub/pdb/validation_reports/xh/1xhj | HTTPS FTP |
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-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: 9815.145 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Staphylococcus epidermidis (bacteria) / Strain: ATCC 12228 / Gene: SE0936 / Plasmid: SER8-21 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21MGK / References: UniProt: Q8CPV7, UniProt: A0A0H2VHU6*PLUS |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: The structure was determined using triple resonance nmr spectroscopy. Automatic backbone assignments were made using AutoAssign. Automatic NOESY assignments were made using AutoStructure. ...Text: The structure was determined using triple resonance nmr spectroscopy. Automatic backbone assignments were made using AutoAssign. Automatic NOESY assignments were made using AutoStructure. Dihedral angle restraints were made using HYPER and Talos. The SPINS database software was used as an integrating agent. |
-Sample preparation
Details |
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Sample conditions | Ionic strength: 100 mM NaCl / pH: 6.5 / Pressure: 1 atm / Temperature: 293 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||
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Radiation wavelength | Relative weight: 1 | ||||||||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: The structure is based on a total of 1311 conformationally restricting non-derived distance restraints. The structure contains 14.9 restraints per residue, with 3.5 long range restraints per ...Details: The structure is based on a total of 1311 conformationally restricting non-derived distance restraints. The structure contains 14.9 restraints per residue, with 3.5 long range restraints per residue. Structure determination was performed iteratively using AutoStructure. | ||||||||||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10 |