Crystal structure of the putative adapter protein MTH1859

Ye, Hong; Chen, Tzu-Chao; Xu, Xiaohui; Pennycooke, Micha; Wu, Hao; Steegborn, Clemens

doi:10.1016/j.jsb.2004.06.004

Cited by 5 publications

(6 citation statements)

References 14 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Based on these structural similarities, a 3D model for this region of CdvA was proposed ( Figure S7 ). The model was found to be most similar to the X-ray structure of the PRC-barrel protein MTH1859 from Methanobacterium thermoautotrophicum (PDB ID: 1PM3; [33] ) which belongs to a conserved family of proteins thought to function as adapters for the assembly of hetero-oligomeric complexes [33]. Interestingly, we noticed that in Candidatus Korarchaeum cryptofilum, a MTH1859-like protein is encoded in a seven gene cluster together with five paralogous ftsZ genes [34], suggesting that MTH1859-like adapter proteins might also play a role in FtsZ-dependent cell division.…”

Section: Discussionmentioning

confidence: 83%

“…We therefore hypothesize that the coiled coil region of CdvA might be responsible for the DNA binding and eventual formation of nucleoprotein filaments, which could be mediated by any of the 29 positively charged residues present in this region. The in silico analysis of CdvA also revealed that the beta-strand-rich N-terminal domain of this protein (residues 1–67) shares primary and secondary structure similarity with the photoreaction center (PRC)-barrel [32] or with MTH1859-like proteins [33] (PFAM ID: PF05239). Based on these structural similarities, a 3D model for this region of CdvA was proposed ( Figure S7 ).…”

Section: Discussionmentioning

confidence: 99%

“…Structure modelling was performed with I-TASSER, which uses a combination of ab initio and homology-based approaches for structural modelling [64] The X-ray structure of the putative adapter protein MTH1859 (PDB ID: 1PM3) from Methanobacterium thermoautotrophicum [33] was identified by I-TASSER as the best template and was subsequently used for structural modelling.The stereochemical quality was assessed using ProSA-web [65]. ProSA-web quality scores for the CdvA N-terminal domain was calculated to be −5.52 (supplemental Fig.…”

Section: Methodsmentioning

confidence: 99%

See 2 more Smart Citations

Crenarchaeal CdvA Forms Double-Helical Filaments Containing DNA and Interacts with ESCRT-III-Like CdvB

et al. 2011

View full text Add to dashboard Cite

BackgroundThe phylum Crenarchaeota lacks the FtsZ cell division hallmark of bacteria and employs instead Cdv proteins. While CdvB and CdvC are homologues of the eukaryotic ESCRT-III and Vps4 proteins, implicated in membrane fission processes during multivesicular body biogenesis, cytokinesis and budding of some enveloped viruses, little is known about the structure and function of CdvA. Here, we report the biochemical and biophysical characterization of the three Cdv proteins from the hyperthermophilic archaeon Metallospherae sedula.Methodology/Principal FindingsUsing sucrose density gradient ultracentrifugation and negative staining electron microscopy, we evidenced for the first time that CdvA forms polymers in association with DNA, similar to known bacterial DNA partitioning proteins. We also observed that, in contrast to full-lengh CdvB that was purified as a monodisperse protein, the C-terminally deleted CdvB construct forms filamentous polymers, a phenomenon previously observed with eukaryotic ESCRT-III proteins. Based on size exclusion chromatography data combined with detection by multi-angle laser light scattering analysis, we demonstrated that CdvC assembles, in a nucleotide-independent way, as homopolymers resembling dodecamers and endowed with ATPase activity in vitro. The interactions between these putative cell division partners were further explored. Thus, besides confirming the previous observations that CdvB interacts with both CdvA and CdvC, our data demonstrate that CdvA/CdvB and CdvC/CdvB interactions are not mutually exclusive.Conclusions/SignificanceOur data reinforce the concept that Cdv proteins are closely related to the eukaryotic ESCRT-III counterparts and suggest that the organization of the ESCRT-III machinery at the Crenarchaeal cell division septum is organized by CdvA an ancient cytoskeleton protein that might help to coordinate genome segregation.

show abstract

Section: Discussionmentioning

confidence: 83%

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

Crenarchaeal CdvA Forms Double-Helical Filaments Containing DNA and Interacts with ESCRT-III-Like CdvB

et al. 2011

View full text Add to dashboard Cite

show abstract

“…YlmC showed the highest structural similarity to a protein from Methanobacterium thermoautotrophicum (PDB 1PM3). Strikingly, this protein, which lacks the conserved acidic residue, oligomerizes to form a large honeycomb-like reticular structure that is thought to serve as an adaptor for the assembly of protein complexes (112). The genomic signature reveals new genes required for endosporulation.…”

Section: Figmentioning

confidence: 99%

A Genomic Signature and the Identification of New Sporulation Genes

et al. 2013

View full text Add to dashboard Cite

Bacterial endospores are the most resistant cell type known to humans, as they are able to withstand extremes of temperature, pressure, chemical injury, and time. They are also of interest because the endospore is the infective particle in a variety of human and livestock diseases. Endosporulation is characterized by the morphogenesis of an endospore within a mother cell. Based on the genes known to be involved in endosporulation in the model organism Bacillus subtilis, a conserved core of about 100 genes was derived, representing the minimal machinery for endosporulation. The core was used to define a genomic signature of about 50 genes that are able to distinguish endospore-forming organisms, based on complete genome sequences, and we show this 50-gene signature is robust against phylogenetic proximity and other artifacts. This signature includes previously uncharacterized genes that we can now show are important for sporulation in B. subtilis and/or are under developmental control, thus further validating this genomic signature. We also predict that a series of polyextremophylic organisms, as well as several gut bacteria, are able to form endospores, and we identified 3 new loci essential for sporulation in B. subtilis: ytaF, ylmC, and ylzA. In all, the results support the view that endosporulation likely evolved once, at the base of the Firmicutes phylum, and is unrelated to other bacterial cell differentiation programs and that this involved the evolution of new genes and functions, as well as the cooption of ancestral, housekeeping functions. Bacterial endospores, such as those formed by species of the Bacillus and Clostridium genera, are arguably the most resistant cellular structures known to scientists. Endospores resist physical and chemical changes, such as exposure to solvents, oxidizing agents, and lytic enzymes, high temperatures, vacuum, acceleration, and irradiation, that would rapidly destroy the vegetative form of the bacterium (1-3). The extreme conditions endured by bacterial endospores include simulated and actual extraterrestrial environments (2). The resilience of the endospore allows it to remain viable in the environment for long periods of time, contributing to the wide geographic distributions of spores in Earth's ecosystems (2). It also allows endospore formers to occupy niches in the gastrointestinal (GI) tract of metazoans, establishing either symbiotic or commensal relationships or pathogenic interactions, in which case the spore often serves as the infectious vehicle (4-7). The robustness of endospores is also the basis for several applications of endospores in biomedicine and biotechnology, including their use in probiotic formulations or as platforms for the display of enzymes or antigens (8-10).Most of the previously described endosporulating bacteria belong to the Clostridia (anaerobic) and Bacilli (aerobic) classes of the Firmicutes phylum, one of the two eubacterial phyla that groups Gram-positive organisms (11). However, endospore formers are found in other classes within t...

show abstract

“…One of the ftsZ genes is included in a conserved euryarchaeal gene cluster containing secE, nusG, and several ribosomal protein genes (28,29). In addition, five paralogous ftsZ genes are present in a seven-gene cluster that also includes a putative adapter protein (30).…”

Section: Cultivation and In Situmentioning

confidence: 99%

A korarchaeal genome reveals insights into the evolution of the Archaea

Elkins

Podar

Graham

et al. 2008

Proc. Natl. Acad. Sci. U.S.A.

254

193

View full text Add to dashboard Cite

The candidate division Korarchaeota comprises a group of uncultivated microorganisms that, by their small subunit rRNA phylogeny, may have diverged early from the major archaeal phyla Crenarchaeota and Euryarchaeota. Here, we report the initial characterization of a member of the Korarchaeota with the proposed name, ''Candidatus Korarchaeum cryptofilum,'' which exhibits an ultrathin filamentous morphology. To investigate possible ancestral relationships between deep-branching Korarchaeota and other phyla, we used whole-genome shotgun sequencing to construct a complete composite korarchaeal genome from enriched cells. The genome was assembled into a single contig 1.59 Mb in length with a G ؉ C content of 49%. Of the 1,617 predicted protein-coding genes, 1,382 (85%) could be assigned to a revised set of archaeal Clusters of Orthologous Groups (COGs). The predicted gene functions suggest that the organism relies on a simple mode of peptide fermentation for carbon and energy and lacks the ability to synthesize de novo purines, CoA, and several other cofactors. Phylogenetic analyses based on conserved single genes and concatenated protein sequences positioned the korarchaeote as a deep archaeal lineage with an apparent affinity to the Crenarchaeota. However, the predicted gene content revealed that several conserved cellular systems, such as cell division, DNA replication, and tRNA maturation, resemble the counterparts in the Euryarchaeota. In light of the known composition of archaeal genomes, the Korarchaeota might have retained a set of cellular features that represents the ancestral archaeal form. microbial cultivation ͉ genomics ͉ hyperthermophiles ͉ Korarchaeota ͉ phylogeny

show abstract

Crystal structure of the putative adapter protein MTH1859

Cited by 5 publications

References 14 publications

Crenarchaeal CdvA Forms Double-Helical Filaments Containing DNA and Interacts with ESCRT-III-Like CdvB

Crenarchaeal CdvA Forms Double-Helical Filaments Containing DNA and Interacts with ESCRT-III-Like CdvB

A Genomic Signature and the Identification of New Sporulation Genes

A korarchaeal genome reveals insights into the evolution of the Archaea

Contact Info

Product

Resources

About