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- PDB-1ft5: CRYSTAL STRUCTURE OF THE OXIDIZED STATE OF CYTOCHROME C554 FROM N... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ft5 | ||||||
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Title | CRYSTAL STRUCTURE OF THE OXIDIZED STATE OF CYTOCHROME C554 FROM NITROSOMONAS EUROPAEA | ||||||
![]() | CYTOCHROME C554 | ||||||
![]() | ELECTRON TRANSPORT / heme-stacking | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Iverson, T.M. / Arciero, D.M. / Hooper, A.B. / Rees, D.C. | ||||||
![]() | ![]() Title: High-resolution structures of the oxidized and reduced states of cytochrome c554 from Nitrosomonas europaea. Authors: Iverson, T.M. / Arciero, D.M. / Hooper, A.B. / Rees, D.C. #1: ![]() Title: Heme Packing Motifs Revealed by the Crystal Structure of the Tetra-heme Cytochrome c554 from Nitrosomonas europaea Authors: Iverson, T.M. / Arciero, D.M. / Hsu, B.T. / Logan, M.S. / Hooper, A.B. / Rees, D.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 58.8 KB | Display | ![]() |
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PDB format | ![]() | 47.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 665.2 KB | Display | ![]() |
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Full document | ![]() | 677.1 KB | Display | |
Data in XML | ![]() | 8.1 KB | Display | |
Data in CIF | ![]() | 11.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 23656.900 Da / Num. of mol.: 1 / Source method: isolated from a natural source Details: CHEMOAUTOTROPHIC BACTERIUM INVOLVED IN BIOLOGICAL NITRIFICATION Source: (natural) ![]() | ||||
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#2: Chemical | #3: Chemical | ChemComp-HEM / #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.02 Å3/Da / Density % sol: 59.21 % | ||||||||||||||||||||||||
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 10.1 Details: 62.5% w/vol potassium phosphate pH 10.1, VAPOR DIFFUSION, SITTING DROP, temperature 295K | ||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22 ℃ / Details: Iverson, T.M., (1998) Nat.Struct.Biol., 5, 1005. | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 93 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Apr 23, 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→20 Å / Num. all: 109601 / Num. obs: 35562 / % possible obs: 97.3 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.08 % / Biso Wilson estimate: 18.6 Å2 / Rmerge(I) obs: 0.045 / Net I/σ(I): 28 |
Reflection shell | Resolution: 1.6→1.68 Å / Rmerge(I) obs: 0.174 / % possible all: 86.1 |
Reflection | *PLUS Num. measured all: 109601 |
Reflection shell | *PLUS % possible obs: 86.1 % / Mean I/σ(I) obs: 7.3 |
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Processing
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Refinement | Resolution: 1.6→20 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh and Huber
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Refinement step | Cycle: LAST / Resolution: 1.6→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 20 Å / σ(F): 0 / Rfactor obs: 0.188 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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