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- PDB-6bok: E. coli release factor 1 (containing deletion 302-304) bound to t... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6bok | |||||||||
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Title | E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosome | |||||||||
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![]() | RIBOSOME / class I release factors / stop-codon recognition / switch loop | |||||||||
Function / homology | ![]() translation release factor activity, codon specific / large ribosomal subunit / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit ...translation release factor activity, codon specific / large ribosomal subunit / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / cytosolic large ribosomal subunit / tRNA binding / cytoplasmic translation / rRNA binding / negative regulation of translation / ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / mRNA binding / zinc ion binding / metal ion binding / cytoplasm / cytosol Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() ![]() synthetic construct (others) | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Svidritskiy, E. / Korostelev, A.A. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Conformational Control of Translation Termination on the 70S Ribosome. Authors: Svidritskiy, E. / Korostelev, A.A. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 9.8 MB | Display | ![]() |
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PDB format | ![]() | Display | ![]() | |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.3 MB | Display | ![]() |
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Full document | ![]() | 2.2 MB | Display | |
Data in XML | ![]() | 446.6 KB | Display | |
Data in CIF | ![]() | 706.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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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Unit cell |
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Components
-16S ribosomal ... , 2 types, 6 molecules ADBDIAGBLC
#1: RNA chain | Mass: 489561.188 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: GenBank: 46197919 #4: RNA chain | Mass: 24846.902 Da / Num. of mol.: 4 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 |
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-RNA chain , 3 types, 6 molecules BEBCFBHAKC
#2: RNA chain | Mass: 936785.625 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: GenBank: 46197919 #3: RNA chain | Mass: 38882.207 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: GenBank: 46197919 #34: RNA chain | Mass: 8862.456 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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+50S ribosomal protein ... , 29 types, 58 molecules EHBFIBGJBHKBILBJMBKNBLOBMPBNQBORBPSBQTBRUBSVB...
-30S ribosomal protein ... , 20 types, 40 molecules JAMCKANCLAOCMAPCNAQCOARCPASCQATCRAUCSAVCTAWCUAXCVAYCWAZCXAAD...
#35: Protein | Mass: 29317.703 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62662 #36: Protein | Mass: 26751.076 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62663 #37: Protein | Mass: 24373.447 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62664 #38: Protein | Mass: 17583.416 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62665 #39: Protein | Mass: 11988.753 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62666 #40: Protein | Mass: 18050.973 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62667 #41: Protein | Mass: 15868.570 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62668 #42: Protein | Mass: 14429.661 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62669 #43: Protein | Mass: 11954.968 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62653 #44: Protein | Mass: 13737.868 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62654 #45: Protein | Mass: 14683.476 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P61941 #46: Protein | Mass: 14338.861 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62655 #47: Protein | Mass: 7158.725 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62656 #48: Protein | Mass: 10578.407 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62657 #49: Protein | Mass: 10409.983 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62238 #50: Protein | Mass: 12324.670 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62658 #51: Protein | Mass: 10258.299 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62659 #52: Protein | Mass: 10605.464 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62660 #53: Protein | Mass: 11722.116 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62661 #54: Protein/peptide | Mass: 3350.030 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Strain: HB27 / ATCC BAA-163 / DSM 7039 / References: UniProt: P62613 |
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-Protein , 1 types, 2 molecules GDHD
#55: Protein | Mass: 41285.090 Da / Num. of mol.: 2 / Mutation: 302-304 deletion Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Non-polymers , 2 types, 1528 molecules ![](data/chem/img/MG.gif)
![](data/chem/img/ZN.gif)
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#56: Chemical | ChemComp-MG / #57: Chemical | ChemComp-ZN / |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal |
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Crystal grow |
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-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation |
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Radiation wavelength |
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Reflection | Resolution: 3.55→90 Å / Num. obs: 699120 / % possible obs: 100 % / Redundancy: 38.5 % / Net I/σ(I): 7.9 | |||||||||||||||||||||||||||||||||||
Reflection shell | Resolution: 3.55→3.75 Å |
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Processing
Software |
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Refinement | Resolution: 3.55→50 Å / Cross valid method: FREE R-VALUE /
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Refinement step | Cycle: LAST / Resolution: 3.55→50 Å
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