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- PDB-1g21: MGATP-BOUND AND NUCLEOTIDE-FREE STRUCTURES OF A NITROGENASE PROTE... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1g21 | ||||||
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Title | MGATP-BOUND AND NUCLEOTIDE-FREE STRUCTURES OF A NITROGENASE PROTEIN COMPLEX BETWEEN LEU127DEL-FE PROTEIN AND THE MOFE PROTEIN | ||||||
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![]() | OXIDOREDUCTASE / nitrogen-fixation / Fe protein / MoeFe protein / P-cluster / FeMo cofactor / 4Fe-4S | ||||||
Function / homology | ![]() molybdenum-iron nitrogenase complex / nitrogenase / : / nitrogenase activity / nitrogen fixation / iron-sulfur cluster binding / 4 iron, 4 sulfur cluster binding / ATP binding / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Chiu, H.-J. / Peters, J.W. / Lanzilotta, W.N. / Ryle, M.J. / Seefeldt, L.C. / Howard, J.B. / Rees, D.C. | ||||||
![]() | ![]() Title: MgATP-Bound and nucleotide-free structures of a nitrogenase protein complex between the Leu 127 Delta-Fe-protein and the MoFe-protein. Authors: Chiu, H. / Peters, J.W. / Lanzilotta, W.N. / Ryle, M.J. / Seefeldt, L.C. / Howard, J.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 | ![]() | 612 KB | Display | ![]() |
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PDB format | ![]() | 491.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 788.2 KB | Display | ![]() |
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Full document | ![]() | 995.9 KB | Display | |
Data in XML | ![]() | 91.2 KB | Display | |
Data in CIF | ![]() | 129.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1g20SC 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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Details | The biological assembly is a dimer, and each subunit contains one MoeFe protein and two Fe protein monomers. |
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Components
-NITROGENASE MOLYBDENUM-IRON PROTEIN ... , 2 types, 4 molecules ACBD
#1: Protein | Mass: 55363.043 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #2: Protein | Mass: 59535.879 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() |
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-Protein , 1 types, 4 molecules EFGH
#3: Protein | Mass: 31435.084 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Source: (natural) ![]() |
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-Non-polymers , 7 types, 18 molecules ![](data/chem/img/HCA.gif)
![](data/chem/img/CFM.gif)
![](data/chem/img/CLF.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/ATP.gif)
![](data/chem/img/SF4.gif)
![](data/chem/img/CFM.gif)
![](data/chem/img/CLF.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/ATP.gif)
![](data/chem/img/SF4.gif)
#4: Chemical | #5: Chemical | #6: Chemical | #7: Chemical | #8: Chemical | ChemComp-MG / #9: Chemical | ChemComp-ATP / #10: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.5 Å3/Da / Density % sol: 50 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: microcapillary batch diffusion / pH: 8.5 Details: PEG 4000, sodium acetate, Tris-HCl. Ph 8.8, pH 8.5, microcapillary batch diffusion, temperature 298K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: batch method | ||||||||||||||||||||||||||||||
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: IMAGE PLATE / Date: Apr 20, 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: 3→20 Å / Num. all: 52828 / Num. obs: 51434 / % possible obs: 71.6 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 0.5 / Redundancy: 7.3 % / Rmerge(I) obs: 0.132 / Net I/σ(I): 12 |
Reflection shell | Resolution: 3→3.11 Å / Redundancy: 3 % / Rmerge(I) obs: 0.282 / % possible all: 28.7 |
Reflection | *PLUS Num. measured all: 386858 |
Reflection shell | *PLUS % possible obs: 28.7 % |
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Processing
Software |
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Refinement | Starting model: MoFe protein of nucleotide-free structure (PDB ID 1G20) Resolution: 3→20 Å / Cross valid method: THROUGHOUT / σ(F): 1 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 3→20 Å
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Refine LS restraints |
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Software | *PLUS Name: CNS / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 3 Å / Lowest resolution: 20 Å / σ(F): 1 / % reflection Rfree: 5 % / Rfactor obs: 0.238 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |