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- PDB-1l8x: Crystal Structure of Ferrochelatase from the Yeast, Saccharomyces... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1l8x | ||||||
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Title | Crystal Structure of Ferrochelatase from the Yeast, Saccharomyces cerevisiae, with Cobalt(II) as the Substrate Ion | ||||||
![]() | Ferrochelatase | ||||||
![]() | LYASE / Ferrochelatase / Heme Biosynthesis / protoheme / Ferro-Lyase / Porphyrin Metallation / Cobalt / Mitochondrial inner membrane protein | ||||||
Function / homology | ![]() Heme biosynthesis / protoporphyrin ferrochelatase / ferrochelatase activity / Mitochondrial protein degradation / heme biosynthetic process / mitochondrial inner membrane / mitochondrion Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Karlberg, T. / Lecerof, D. / Gora, M. / Silvegren, G. / Labbe-Bois, R. / Hansson, M. / Al-Karadaghi, S. | ||||||
![]() | ![]() Title: Metal Binding to Saccharomyces cerevisiae Ferrochelatase Authors: Karlberg, T. / Lecerof, D. / Gora, M. / Silvegren, G. / Labbe-Bois, R. / Hansson, M. / Al-Karadaghi, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 149.7 KB | Display | ![]() |
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PDB format | ![]() | 117.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1lbqC ![]() 1hrkS S: Starting model for refinement C: citing same article ( |
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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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Components
#1: Protein | Mass: 41000.727 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: HEMZ / Production host: ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3 Å3/Da / Density % sol: 59 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: PEG2000, 2-propanol, Tris-HCl, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / pH: 8 | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Nov 11, 2001 |
Radiation | Monochromator: Mirrors / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9678 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→15 Å / Num. all: 22973 / Num. obs: 22973 / % possible obs: 90.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 2.7→2.9 Å / Rmerge(I) obs: 0.302 / Mean I/σ(I) obs: 22.9 / Num. unique all: 1710 / % possible all: 60.9 |
Reflection | *PLUS Lowest resolution: 15 Å / Rmerge(I) obs: 0.174 |
Reflection shell | *PLUS % possible obs: 60.9 % / Mean I/σ(I) obs: 0.302 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1HRK Resolution: 2.7→15 Å / Cross valid method: THROUGHOUT USING FREE R / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.7→15 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement | *PLUS Lowest resolution: 15 Å / % reflection Rfree: 5 % | |||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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