+
Open data
-
Basic information
Entry | Database: PDB / ID: 2vdu | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of trm8-trm82, THE YEAST TRNA m7G methylation complex | ||||||
![]() |
| ||||||
![]() | TRANSFERASE / S-ADENOSYL-L-METHIONINE / TRNA PROCESSING / PHOSPHORYLATION / METHYLTRANSFERASE / M7G / TRNA / SPOUT MT / WD REPEAT | ||||||
Function / homology | ![]() tRNA (m7G46) methyltransferase complex / tRNA (guanine-N7)-methylation / RNA (guanine-N7)-methylation / tRNA (guanine46-N7)-methyltransferase / tRNA (guanine(46)-N7)-methyltransferase activity / tRNA methyltransferase complex / tRNA modification / tRNA methylation / tRNA binding / nucleoplasm ...tRNA (m7G46) methyltransferase complex / tRNA (guanine-N7)-methylation / RNA (guanine-N7)-methylation / tRNA (guanine46-N7)-methyltransferase / tRNA (guanine(46)-N7)-methyltransferase activity / tRNA methyltransferase complex / tRNA modification / tRNA methylation / tRNA binding / nucleoplasm / nucleus / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Leulliot, N. / Chaillet, M. / Durand, D. / Ulryck, N. / Blondeau, K. / Van Tilbeurgh, H. | ||||||
![]() | ![]() Title: Structure of the Yeast tRNA M7G Methylation Complex. Authors: Leulliot, N. / Chaillet, M. / Durand, D. / Ulryck, N. / Blondeau, K. / Van Tilbeurgh, H. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 246.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 197.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 477.3 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 514.9 KB | Display | |
Data in XML | ![]() | 47 KB | Display | |
Data in CIF | ![]() | 64.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 | ![]()
| ||||||||
3 | ![]()
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 51383.844 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() #2: Protein | Mass: 29796.221 Da / Num. of mol.: 2 / Fragment: 46-END, RESIDUES 39-286 Source method: isolated from a genetically manipulated source Details: 46 N-TERMNIAL TRUNCATION Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() References: UniProt: Q12009, tRNA (guanine46-N7)-methyltransferase #3: Chemical | #4: Water | ChemComp-HOH / | Sequence details | N-TERMINAL 46 RESIDUE TRUNCATION | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.74 Å3/Da / Density % sol: 45.56 % / Description: NONE |
---|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97953 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→20 Å / Num. obs: 26954 / % possible obs: 98.2 % / Observed criterion σ(I): 1.5 / Redundancy: 3.7 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 12.2 |
Reflection shell | Resolution: 2.3→2.4 Å / Redundancy: 3.7 % / Rmerge(I) obs: 0.69 / Mean I/σ(I) obs: 1.5 / % possible all: 99.1 |
-
Processing
Software |
| ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 2.4→20 Å / Stereochemistry target values: ML
| ||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→20 Å
|