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- PDB-1xvg: soluble methane monooxygenase hydroxylase: bromoethanol soaked st... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1xvg | ||||||
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Title | soluble methane monooxygenase hydroxylase: bromoethanol soaked structure | ||||||
![]() | (Methane monooxygenase component A ...) x 3 | ||||||
![]() | OXIDOREDUCTASE / methane / diiron / product binding / cavities / four-helix bundle | ||||||
Function / homology | ![]() methane metabolic process / methane monooxygenase (soluble) / : / : / : / one-carbon metabolic process / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sazinsky, M.H. / Lippard, S.J. | ||||||
![]() | ![]() Title: Product Bound Structures of the Soluble Methane Monooxygenase Hydroxylase from Methylococcus capsulatus (Bath): Protein Motion in the Alpha-Subunit Authors: Sazinsky, M.H. / Lippard, S.J. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 461.7 KB | Display | ![]() |
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PDB format | ![]() | 372.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 492.7 KB | Display | ![]() |
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Full document | ![]() | 531 KB | Display | |
Data in XML | ![]() | 88.6 KB | Display | |
Data in CIF | ![]() | 125.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1xu3C ![]() 1xu5C ![]() 1xvbC ![]() 1xvcC ![]() 1xvdC ![]() 1xveC ![]() 1xvfC ![]() 1mtyS C: citing same article ( S: Starting model for refinement |
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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
-Methane monooxygenase component A ... , 3 types, 6 molecules ABCDEF
#1: Protein | Mass: 60719.113 Da / Num. of mol.: 2 / Fragment: alpha subunit / Source method: isolated from a natural source / Source: (natural) ![]() References: UniProt: P22869, methane monooxygenase (soluble) #2: Protein | Mass: 45184.660 Da / Num. of mol.: 2 / Fragment: beta subunit / Source method: isolated from a natural source / Source: (natural) ![]() References: UniProt: P18798, methane monooxygenase (soluble) #3: Protein | Mass: 19879.732 Da / Num. of mol.: 2 / Fragment: gamma subunit / Source method: isolated from a natural source / Source: (natural) ![]() References: UniProt: P11987, methane monooxygenase (soluble) |
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-Non-polymers , 4 types, 1276 molecules ![](data/chem/img/FE.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/BRJ.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/BRJ.gif)
![](data/chem/img/HOH.gif)
#4: Chemical | ChemComp-FE / #5: Chemical | ChemComp-CA / #6: Chemical | ChemComp-BRJ / #7: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 55.1 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 7 Details: MOPS, PEG 8000, CaCl2, NaN3, glyerol, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Mar 1, 2001 |
Radiation | Monochromator: Si 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Resolution: 1.96→30 Å / Num. all: 197561 / Num. obs: 197561 / % possible obs: 99.8 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 4.1 % / Biso Wilson estimate: 12.2 Å2 / Rmerge(I) obs: 0.082 / Rsym value: 0.082 / Net I/σ(I): 13.1 |
Reflection shell | Resolution: 1.96→2.04 Å / Rmerge(I) obs: 0.461 / Mean I/σ(I) obs: 2.7 / Rsym value: 0.461 / % possible all: 98.2 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: pdb entry 1mty Resolution: 1.96→29.97 Å / Rfactor Rfree error: 0.002 / Data cutoff high absF: 357837.28 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2 / σ(I): 2 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 54.1337 Å2 / ksol: 0.353266 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 27.5 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.96→29.97 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.96→2.08 Å / Rfactor Rfree error: 0.009 / Total num. of bins used: 6
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Xplor file |
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