Bacterial pleckstrin homology domains: a prokaryotic origin for the PH domain.

Journal of Molecular Biology
Qingping XuIan A Wilson

Abstract

Pleckstrin homology (PH) domains have been identified only in eukaryotic proteins to date. We have determined crystal structures for three members of an uncharacterized protein family (Pfam PF08000), which provide compelling evidence for the existence of PH-like domains in bacteria (PHb). The first two structures contain a single PHb domain that forms a dome-shaped, oligomeric ring with C(5) symmetry. The third structure has an additional helical hairpin attached at the C-terminus and forms a similar but much larger ring with C(12) symmetry. Thus, both molecular assemblies exhibit rare, higher-order, cyclic symmetry but preserve a similar arrangement of their PHb domains, which gives rise to a conserved hydrophilic surface at the intersection of the beta-strands of adjacent protomers that likely mediates protein-protein interactions. As a result of these structures, additional families of PHb domains were identified, suggesting that PH domains are much more widespread than originally anticipated. Thus, rather than being a eukaryotic innovation, the PH domain superfamily appears to have existed before prokaryotes and eukaryotes diverged.

References

Nov 1, 1994·Nature Structural Biology·D TimmT Blundell
Jun 23, 1994·Nature·H S YoonS W Fesik
Jun 23, 1994·Nature·M J MaciasH Oschkinat
Nov 1, 1995·Trends in Biochemical Sciences·L Holm, C Sander
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Jul 1, 1998·Annual Review of Biophysics and Biomolecular Structure·M J Rebecchi, S Scarlata
Mar 25, 1999·Acta Crystallographica. Section D, Biological Crystallography·T C Terwilliger, J Berendzen
Mar 25, 1999·Acta Crystallographica. Section D, Biological Crystallography·D W Cruickshank
Nov 5, 1999·Trends in Biochemical Sciences·N BlombergM Saraste
Aug 23, 2001·Proceedings of the National Academy of Sciences of the United States of America·N A BakerJ A McCammon
Sep 7, 2001·Journal of Bacteriology·A PetersohnM Hecker
Aug 24, 2002·Proceedings of the National Academy of Sciences of the United States of America·Scott A LesleyRaymond C Stevens
Sep 28, 2002·Acta Crystallographica. Section D, Biological Crystallography·Thomas R Schneider, George M Sheldrick
Oct 24, 2003·Acta Crystallographica. Section D, Biological Crystallography·G BricogneW Paciorek
Dec 19, 2003·Nucleic Acids Research·Alex BatemanSean R Eddy
Jun 25, 2004·Nucleic Acids Research·Ian W DavisDavid C Richardson
Jul 9, 2004·Journal of Molecular Biology·Lianne R MayorMichael J E Sternberg
Sep 1, 1994·Acta Crystallographica. Section D, Biological Crystallography·UNKNOWN Collaborative Computational Project, Number 4
May 1, 1997·Acta Crystallographica. Section D, Biological Crystallography·G N MurshudovE J Dodson
Nov 30, 2004·Journal of Molecular Biology·Mark T UhlikGary L Johnson
Dec 2, 2004·Acta Crystallographica. Section D, Biological Crystallography·Paul Emsley, Kevin Cowtan
Dec 2, 2004·Acta Crystallographica. Section D, Biological Crystallography·Serge X CohenAnastassis Perrakis
Apr 26, 2005·Nucleic Acids Research·Yang Zhang, Jeffrey Skolnick
May 28, 2005·The EMBO Journal·Rongsheng JinAxel T Brunger
Jun 28, 2005·Nucleic Acids Research·Lukasz JaroszewskiAdam Godzik
Jan 18, 2006·Proceedings of the National Academy of Sciences of the United States of America·Michael J BegleyJack E Dixon
Mar 23, 2006·Molecular & Cellular Proteomics : MCP·Susanne WolffDörte Becher
Oct 24, 2006·Nature Structural & Molecular Biology·Steven L AlamWesley I Sundquist
Jan 20, 2007·Biochemical Society Symposium·Mark A Lemmon
Feb 6, 2007·Bioinformatics·Alex Bateman, Robert D Finn
May 8, 2007·Nucleic Acids Research·Lukas KällErik L L Sonnhammer
Jan 16, 2008·PLoS Computational Biology·Matthew MenkeLenore Cowen
Feb 19, 2008·Molecular Cell·Meipei SheHaiwei Song
Aug 30, 2008·The Journal of Biological Chemistry·Tomoyuki MoriToshio Hakoshima

❮ Previous
Next ❯

Citations

Sep 15, 2012·Journal of Biochemistry·Hisashi OishiSatoru Takahashi
Mar 2, 2013·PloS One·Ruth Y EberhardtAlex Bateman
Feb 18, 2016·BioMed Research International·Zhi JiangGuang Hu
Apr 7, 2016·Biochimica Et Biophysica Acta·Katerina C NastouStavros J Hamodrakas
May 1, 2012·Mobile Genetic Elements·Julien Guglielmini, Laurence Van Melderen
Nov 23, 2016·The Journal of Biological Chemistry·Constance AgamasuJamil S Saad
Mar 22, 2016·Biomedical Reports·Maria Aparecida Nagai
Nov 1, 2020·Applied Microbiology and Biotechnology·Maria do Carmo de Freire BastosMarcus Lívio Varella Coelho
Mar 30, 2021·Biophysical Journal·Jackson WeakoAttila Gursoy
Sep 1, 2021·World Journal of Microbiology & Biotechnology·Daniel Gonzalo Alonso-ReyesVirginia Helena Albarracín

❮ Previous
Next ❯

Methods Mentioned

BETA
size-exclusion chromatography
PCR
static light scattering

Software Mentioned

REFMAC5
LSQKAB
autoSHARP
DALI
Phobius
TMalign
SCOOP
PSI
Coot
CCP4

Related Concepts

Related Feeds

Bacteriophage: Phage Therapy

Phage therapy uses bacterial viruses (bacteriophages) to treat bacterial infections and is widely being recognized as an alternative to antibiotics. Here is the latest research.