+Open data
-Basic information
Entry | Database: PDB / ID: 1ftc | ||||||
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Title | Y13C MUTANT OF AZOTOBACTER VINELANDII FDI | ||||||
Components | FERREDOXIN | ||||||
Keywords | ELECTRON TRANSPORT / IRON-SULFUR | ||||||
Function / homology | Function and homology information 3 iron, 4 sulfur cluster binding / 4 iron, 4 sulfur cluster binding / electron transfer activity / DNA binding / metal ion binding Similarity search - Function | ||||||
Biological species | Azotobacter vinelandii (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.35 Å | ||||||
Authors | Kemper, M.A. / Lloyd, S.J. / Prasad, G.S. / Stout, C.D. / Fawcett, S. / Armstrong, F.A. / Burgess, B.K. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 1997 Title: Y13C Azotobacter vinelandii ferredoxin I. A designed [Fe-S] ligand motif contains a cysteine persulfide. Authors: Kemper, M.A. / Stout, C.D. / Lloyd, S.J. / Prasad, G.S. / Fawcett, S.E. / Armstrong, F.A. / Shen, B. / Burgess, B.K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ftc.cif.gz | 51.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ftc.ent.gz | 40 KB | Display | PDB format |
PDBx/mmJSON format | 1ftc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ft/1ftc ftp://data.pdbj.org/pub/pdb/validation_reports/ft/1ftc | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 12031.564 Da / Num. of mol.: 2 / Mutation: Y13C Source method: isolated from a genetically manipulated source Details: CYS 13 MODIFIED TO A PERSULFIDE, [3FE-4S] AND [4FE-4S] CLUSTERS AS IN NATIVE PROTEIN Source: (gene. exp.) Azotobacter vinelandii (bacteria) / Strain: JG100 / Production host: Azotobacter vinelandii (bacteria) / References: UniProt: P00214 #2: Chemical | #3: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.68 Å3/Da / Density % sol: 54 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7.4 / Method: vapor diffusion | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: XENTRONICS / Detector: AREA DETECTOR |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 9116 / % possible obs: 82.5 % / Observed criterion σ(I): 0 / Redundancy: 2.76 % / Rmerge(I) obs: 0.067 |
Reflection | *PLUS Highest resolution: 2.35 Å / Num. obs: 9115 / % possible obs: 85.2 % / Num. measured all: 25133 |
Reflection shell | *PLUS Highest resolution: 2.35 Å / Lowest resolution: 2.43 Å / % possible obs: 32.9 % |
-Processing
Software |
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Refinement | Resolution: 2.35→8 Å / σ(F): 0 Details: NOTE THAT THERE ARE TWO IDENTICAL COPIES OF THE Y13C MUTANT OF FERREDOXIN IN THE ASYMMETRIC UNIT, WITH CHAIN IDENTIFIERS A AND B, AND EACH COPY HAS A MUTATED RESIDUE AT POSITION 13 ( TYR -> ...Details: NOTE THAT THERE ARE TWO IDENTICAL COPIES OF THE Y13C MUTANT OF FERREDOXIN IN THE ASYMMETRIC UNIT, WITH CHAIN IDENTIFIERS A AND B, AND EACH COPY HAS A MUTATED RESIDUE AT POSITION 13 ( TYR -> CYS ) WHICH IS FURTHER MODIFIED TO A CYSTEINE PERSULFIDE.
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Displacement parameters | Biso mean: 9.64 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.35→8 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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