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- PDB-1fdn: REFINED CRYSTAL STRUCTURE OF THE 2[4FE-4S] FERREDOXIN FROM CLOSTR... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1fdn | ||||||
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Title | REFINED CRYSTAL STRUCTURE OF THE 2[4FE-4S] FERREDOXIN FROM CLOSTRIDIUM ACIDURICI AT 1.84 ANGSTROMS RESOLUTION | ||||||
![]() | FERREDOXIN | ||||||
![]() | ELECTRON TRANSPORT | ||||||
Function / homology | ![]() 4 iron, 4 sulfur cluster binding / electron transfer activity / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Duee, E. / Fanchon, E. / Vicat, J. / Sieker, L.C. / Meyer, J. / Moulis, J-M. | ||||||
![]() | ![]() Title: Refined crystal structure of the 2[4Fe-4S] ferredoxin from Clostridium acidurici at 1.84 A resolution. Authors: Duee, E.D. / Fanchon, E. / Vicat, J. / Sieker, L.C. / Meyer, J. / Moulis, J.M. #1: ![]() Title: Sequences of Clostridial Ferredoxins Authors: Meyer, J. / Moulis, J.-M. / Scherrer, N. / Gagnon, J. / Ulrich, J. #2: ![]() Title: Crystal Structure of Clostridium Acidi-Urici Ferredoxin at 5 Angstroms Resolution Based on Measurements of Anomalous X-Ray Scattering at Multiple Wavelengths Authors: Krishnamurthy, H.M. / Hendrickson, W.A. / Orme-Johnson, W.H. / Merritt, E.A. / Phizackerley, R.P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 22 KB | Display | ![]() |
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PDB format | ![]() | 14 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 422.2 KB | Display | ![]() |
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Full document | ![]() | 422.1 KB | Display | |
Data in XML | ![]() | 4.7 KB | Display | |
Data in CIF | ![]() | 5.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Atom site foot note | 1: TWO ALTERNATE POSITIONS FOR THE SIDE CHAIN OF ASN 21 HAVE BEEN OBSERVED AND GIVEN OCCUPANCIES OF 0.5. 2: THE EXACT POSITIONS OF ASP 27 AND ASP 28 ARE UNDEFINED FROM THE X-RAY DATA. THESE RESIDUES HAVE BEEN BUILT WITH A GOOD GEOMETRY FOR THE MAIN CHAIN AND REASONABLE CHI ANGLES FOR THE SIDE CHAINS. |
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Components
#1: Protein | Mass: 5540.179 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2 Å3/Da / Density % sol: 38.49 % | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 281 K / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 1.8 Å / Num. obs: 4203 / % possible obs: 92 % / Num. measured all: 15645 / Rmerge F obs: 0.062 |
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Processing
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Refinement | Resolution: 1.84→18 Å / σ(F): 2 Details: THE EXACT POSITIONS OF ASP 27 AND ASP 28 ARE UNDEFINED FROM THE X-RAY DATA. THESE RESIDUES HAVE BEEN BUILT WITH A GOOD GEOMETRY FOR THE MAIN CHAIN AND REASONABLE CHI ANGLES FOR THE SIDE CHAINS.
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Refinement step | Cycle: LAST / Resolution: 1.84→18 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.169 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 2.58 |