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- PDB-1l3i: MT0146, THE PRECORRIN-6Y METHYLTRANSFERASE (CBIT) HOMOLOG FROM M.... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1l3i | ||||||
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Title | MT0146, THE PRECORRIN-6Y METHYLTRANSFERASE (CBIT) HOMOLOG FROM M. THERMOAUTOTROPHICUM, ADOHCY BINARY COMPLEX | ||||||
![]() | Precorrin-6y methyltransferase/putative decarboxylase | ||||||
![]() | TRANSFERASE / LYASE / STRUCTURAL GENOMICS / BETA BARREL / ROSSMANN FOLD / TETRAMER / METHYLTRANSFERASE / DECARBOXYLASE / STRUCTURE-BASED FUNCTION ASSIGNMENT | ||||||
Function / homology | ![]() cobalt-precorrin-6B C5-methyltransferase activity / cobalt-precorrin-6B (C15)-methyltransferase [decarboxylating] / corrin biosynthetic process / protein methyltransferase activity / cobalamin biosynthetic process / methylation Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Keller, J.P. / Smith, P.M. / Benach, J. / Christendat, D. / deTitta, G. / Hunt, J.F. | ||||||
![]() | ![]() Title: The Crystal Structure of Mt0146/CbiT Suggests that the Putative Precorrin-8W Decarboxylase is a Methyltransferase Authors: Keller, J.P. / Smith, P.M. / Benach, J. / Christendat, D. / deTitta, G. / Hunt, J.F. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 239.1 KB | Display | ![]() |
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PDB format | ![]() | 193.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.8 MB | Display | ![]() |
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Full document | ![]() | 1.8 MB | Display | |
Data in XML | ![]() | 54.6 KB | Display | |
Data in CIF | ![]() | 75.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1f38SC ![]() 1kxzC ![]() 1l3bC ![]() 1l3cC 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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1 | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 21112.131 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: Mth146 / Plasmid: B834 Codon+ / Production host: ![]() ![]() #2: Chemical | ChemComp-SAH / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.58 Å3/Da / Density % sol: 52.31 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: PEG 8000, MgCl, pH 7.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 25 ℃ / pH: 7.5 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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: ADSC QUANTUM 4 / Detector: CCD / Date: Mar 15, 2000 |
Radiation | Monochromator: SI / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→50 Å / Num. obs: 91883 / % possible obs: 97.8 % / Observed criterion σ(F): -2 / Observed criterion σ(I): -2 / Redundancy: 3.37 % |
Reflection | *PLUS Lowest resolution: 40 Å / % possible obs: 97.7 % / Redundancy: 3.34 % / Rmerge(I) obs: 0.14 |
Reflection shell | *PLUS % possible obs: 98 % / Rmerge(I) obs: 1.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1F38 Resolution: 1.95→26.17 Å / Cross valid method: THROUGHOUT / σ(F): 1 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.95→26.17 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 1.9 Å / Lowest resolution: 40 Å / Rfactor Rfree: 0.2577 / Rfactor Rwork: 0.212 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |