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Structure paper

TitleStructure of BipA in GTP form bound to the ratcheted ribosome.
Journal, issue, pagesProc Natl Acad Sci U S A, Vol. 112, Issue 35, Page 10944-10949, Year 2015
Publish dateSep 1, 2015
AuthorsVeerendra Kumar / Yun Chen / Rya Ero / Tofayel Ahmed / Jackie Tan / Zhe Li / Andrew See Weng Wong / Shashi Bhushan / Yong-Gui Gao /
PubMed AbstractBPI-inducible protein A (BipA) is a member of the family of ribosome-dependent translational GTPase (trGTPase) factors along with elongation factors G and 4 (EF-G and EF4). Despite being highly ...BPI-inducible protein A (BipA) is a member of the family of ribosome-dependent translational GTPase (trGTPase) factors along with elongation factors G and 4 (EF-G and EF4). Despite being highly conserved in bacteria and playing a critical role in coordinating cellular responses to environmental changes, its structures (isolated and ribosome bound) remain elusive. Here, we present the crystal structures of apo form and GTP analog, GDP, and guanosine-3',5'-bisdiphosphate (ppGpp)-bound BipA. In addition to having a distinctive domain arrangement, the C-terminal domain of BipA has a unique fold. Furthermore, we report the cryo-electron microscopy structure of BipA bound to the ribosome in its active GTP form and elucidate the unique structural attributes of BipA interactions with the ribosome and A-site tRNA in the light of its possible function in regulating translation.
External linksProc Natl Acad Sci U S A / PubMed:26283392 / PubMed Central
MethodsEM (single particle) / X-ray diffraction
Resolution3.31 - 5 Å
Structure data

6396

5a9z

EMDB-6396: The structure of BipA in GTP form bound to the ratcheted ribosome
PDB-5a9z: Complex of Thermous thermophilus ribosome bound to BipA-GDPCP
Method: EM (single particle) / Resolution: 4.7 Å

6397

5aa0

EMDB-6397: The structure of BipA in GTP form bound to the ratcheted ribosome
PDB-5aa0: Complex of Thermous thermophilus ribosome (A-and P-site tRNA) bound to BipA-GDPCP
Method: EM (single particle) / Resolution: 4.8 Å

PDB-5a9v:
Structure of apo BipA
Method: X-RAY DIFFRACTION / Resolution: 3.31 Å

PDB-5a9w:
Structure of GDPCP BipA
Method: X-RAY DIFFRACTION / Resolution: 3.7 Å

PDB-5a9x:
Structure of GDP bound BipA
Method: X-RAY DIFFRACTION / Resolution: 3.8 Å

PDB-5a9y:
Structure of ppGpp BipA
Method: X-RAY DIFFRACTION / Resolution: 4.0 Å

Chemicals

ChemComp-GCP:
PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER / GMP-PCP, energy-carrying molecule analogue*YM

ChemComp-GDP:
GUANOSINE-5'-DIPHOSPHATE / GDP, energy-carrying molecule*YM / Guanosine diphosphate

ChemComp-HOH:
WATER / Water

ChemComp-G4P:
GUANOSINE-5',3'-TETRAPHOSPHATE / Guanosine pentaphosphate

ChemComp-NMY:
NEOMYCIN / antibiotic*YM / Neomycin

ChemComp-8AN:
3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate)

Source
  • Thermus thermophilus (bacteria)
  • escherichia coli (E. coli)
  • thermus thermophilus hb8 (bacteria)
KeywordsRIBOSOMAL PROTEIN / RIBOSOME / TRANSLATIONAL GTPASE FACTORS / BIPA / X-RAY CRYSTALLOGRAPHY AND CRYO-ELECTRON MICROSCOPY / PROTEIN

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