+Open data
-Basic information
Entry | Database: PDB / ID: 1ttt | ||||||
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Title | Phe-tRNA, elongation factoR EF-TU:GDPNP ternary complex | ||||||
Components |
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Keywords | COMPLEX (ELONGATION FACTOR/TRNA) / PROTEIN SYNTHESIS / EF-TU / TRNA / RIBOSOME / 1EFT / 4TNA / PEPTIDE ELONGATION RIBONUCLEOPROTEIN / COMPLEX (ELONGATION FACTOR-TRNA) / COMPLEX (ELONGATION FACTOR-TRNA) complex | ||||||
Function / homology | Function and homology information translation elongation factor activity / GTPase activity / GTP binding / cytosol Similarity search - Function | ||||||
Biological species | Thermus aquaticus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.7 Å | ||||||
Authors | Nissen, P. / Kjeldgaard, M. / Thirup, S. / Polekhina, G. / Reshetnikova, L. / Clark, B.F.C. / Nyborg, J. | ||||||
Citation | Journal: Science / Year: 1995 Title: Crystal structure of the ternary complex of Phe-tRNAPhe, EF-Tu, and a GTP analog. Authors: Nissen, P. / Kjeldgaard, M. / Thirup, S. / Polekhina, G. / Reshetnikova, L. / Clark, B.F. / Nyborg, J. #1: Journal: FEBS Lett. / Year: 1994 Title: Purification and Crystallization of the Ternary Complex of Elongation Factor TU:GTP and Phe-tRNA(Phe) Authors: Nissen, P. / Reshetnikova, L. / Siboska, G. / Polekhina, G. / Thirup, S. / Kjeldgaard, M. / Clark, B.F. / Nyborg, J. #2: Journal: Structure / Year: 1993 Title: The Crystal Structure of Elongation Factor EF-TU from Thermus Aquaticus in the GTP Conformation Authors: Kjeldgaard, M. / Nissen, P. / Thirup, S. / Nyborg, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ttt.cif.gz | 400.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ttt.ent.gz | 318.5 KB | Display | PDB format |
PDBx/mmJSON format | 1ttt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ttt_validation.pdf.gz | 668.2 KB | Display | wwPDB validaton report |
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Full document | 1ttt_full_validation.pdf.gz | 863.1 KB | Display | |
Data in XML | 1ttt_validation.xml.gz | 59 KB | Display | |
Data in CIF | 1ttt_validation.cif.gz | 81.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tt/1ttt ftp://data.pdbj.org/pub/pdb/validation_reports/tt/1ttt | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-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
-RNA chain / Protein , 2 types, 6 molecules DEFABC
#1: RNA chain | Mass: 24890.121 Da / Num. of mol.: 3 / Source method: obtained synthetically Details: TERNARY COMPLEX WITH GUANOSINE-5'-(BETA,GAMMA-IMIDO) TRIPHOSPHATE (GDPNP) #2: Protein | Mass: 44742.980 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Thermus aquaticus (bacteria) / Strain: YT-1 / References: UniProt: Q01698 |
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-Non-polymers , 4 types, 62 molecules
#3: Chemical | ChemComp-MG / #4: Chemical | #5: Chemical | #6: Water | ChemComp-HOH / | |
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-Details
Nonpolymer details | A NON-VERIFIED MG 2+ ION WAS INCLUDED IN ALL THREE TRNA MOLECULES. |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.69 Å3/Da / Density % sol: 66.67 % | |||||||||||||||
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Crystal grow | pH: 6.8 / Details: pH 6.8 | |||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: unknown / Details: Nissen, P., (1994) FEBS Lett., 356, 165. / PH range low: 7 / PH range high: 6.7 | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SRS / Beamline: PX9.6 / Wavelength: 0.87 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Mar 10, 1995 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.87 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→25 Å / Num. obs: 80769 / % possible obs: 96.1 % / Observed criterion σ(I): 2 / Redundancy: 2.8 % / Rmerge(I) obs: 0.052 |
Reflection | *PLUS % possible obs: 96.8 % |
-Processing
Software |
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Refinement | Resolution: 2.7→25 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 2.7→25 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.206 / Rfactor Rfree: 0.296 | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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