Experts and Doctors on archaeal proteins in Beijing, China

Summary

Locale: Beijing, China
Topic: archaeal proteins

Top Publications

  1. Ge M, Xia X, Pan X. Salt bridges in the hyperthermophilic protein Ssh10b are resilient to temperature increases. J Biol Chem. 2008;283:31690-6 pubmed publisher
    ..Implications of this finding are useful for engineering proteins with enhanced thermostability. ..
  2. Cai L, Zhao D, Hou J, Wu J, Cai S, DasSarma P, et al. Cellular and organellar membrane-associated proteins in haloarchaea: perspectives on the physiological significance and biotechnological applications. Sci China Life Sci. 2012;55:404-14 pubmed publisher
    ..This review focuses on these haloarchaeal cellular and organellar membrane-associated proteins, and provides insight into their physiological significance and biotechnological potential. ..
  3. Xu S, Qin S, Pan X. Thermal and conformational stability of Ssh10b protein from archaeon Sulfolobus shibattae. Biochem J. 2004;382:433-40 pubmed
    ..The small DeltaC(p) of Ssh10b appears to result mainly from the presence of compactness in the denatured state. ..
  4. Chen L, Huang L. Oligonucleotide cleavage and rejoining by topoisomerase III from the hyperthermophilic archaeon Sulfolobus solfataricus: temperature dependence and strand annealing-promoted DNA religation. Mol Microbiol. 2006;60:783-94 pubmed
    ..These results suggest that Sso topo III is well suited for a role in DNA rewinding, whether it leads to homoduplex or heteroduplex formation. ..
  5. Chu Y, Zhang Z, Wang Q, Luo Y, Huang L. Identification and characterization of a highly conserved crenarchaeal protein lysine methyltransferase with broad substrate specificity. J Bacteriol. 2012;194:6917-26 pubmed publisher
    ..The finding of aKMT will help elucidate mechanisms underlining extensive protein lysine methylation and the functional significance of posttranslational protein methylation in crenarchaea. ..
  6. Fang X, Cui Q, Tong Y, Feng Y, Shan L, Huang L, et al. A stabilizing alpha/beta-hydrophobic core greatly contributes to hyperthermostability of archaeal [P62A]Ssh10b. Biochemistry. 2008;47:11212-21 pubmed publisher
    ..In comparison with homologous mesophilic and thermophilic proteins, it can be presumed that the stabilizing alpha/beta-hydrophobic core in the [P62A]Ssh10b structure greatly contributes to the high thermostability of the protein. ..
  7. Zhang L, Lou H, Guo L, Zhan Z, Duan Z, Guo X, et al. Accurate DNA synthesis by Sulfolobus solfataricus DNA polymerase B1 at high temperature. Extremophiles. 2010;14:107-17 pubmed publisher
    ..These properties of Sso pol B1 are consistent with the proposed role of the enzyme as a replicase in S. solfataricus. ..
  8. Xuan J, Yao H, Feng Y, Wang J. Cloning, expression and purification of DNA-binding protein Mvo10b from Methanococcus voltae. Protein Expr Purif. 2009;64:162-6 pubmed publisher
    ..The developed protocol has potential application in the production of the other thermophilic and mesophilic proteins in the Sac10b family. ..
  9. Lu Q, Han J, Zhou L, Coker J, DasSarma P, Dassarma S, et al. Dissection of the regulatory mechanism of a heat-shock responsive promoter in Haloarchaea: a new paradigm for general transcription factor directed archaeal gene regulation. Nucleic Acids Res. 2008;36:3031-42 pubmed publisher

More Information

Publications43

  1. Feng Y, Yao H, Wang J. Crystal structure of the crenarchaeal conserved chromatin protein Cren7 and double-stranded DNA complex. Protein Sci. 2010;19:1253-7 pubmed publisher
  2. Ge M, Mao Y, Pan X. Refolding of the hyperthermophilic protein Ssh10b involves a kinetic dimeric intermediate. Extremophiles. 2009;13:131-7 pubmed publisher
    ..In addition, folding mechanisms of Ssh10b and several other alpha/beta-mixed or pure beta-sheet proteins are compared. ..
  3. Dai P, Wang Y, Ye R, Chen L, Huang L. DNA topoisomerase III from the hyperthermophilic archaeon Sulfolobus solfataricus with specific DNA cleavage activity. J Bacteriol. 2003;185:5500-7 pubmed
    ..This sequence bears more resemblance to the preferred cleavage sites of topoisomerases III than to those of topoisomerases I. Based on these data and sequence analysis, we designate the enzyme S. solfataricus topoisomerase III. ..
  4. Zhang Z, Gong Y, Guo L, Jiang T, Huang L. Structural insights into the interaction of the crenarchaeal chromatin protein Cren7 with DNA. Mol Microbiol. 2010;76:749-59 pubmed publisher
    ..Structural comparison of Cren7-DNA complexes with Sac7d-DNA complexes reveals significant differences between the two proteins in DNA binding surface, suggesting that Cren7 and Sul7d serve distinct functions in chromosomal organization...
  5. Zhu X, Ye K. Crystal structure of Cmr2 suggests a nucleotide cyclase-related enzyme in type III CRISPR-Cas systems. FEBS Lett. 2012;586:939-45 pubmed publisher
    ..Additionally, two helical domains resemble the thumb domain of A-family DNA polymerase and Cmr5, respectively. Our results suggest that Cmr2 possesses novel enzymatic activity that remains to be elucidated...
  6. Xue H, Guo R, Wen Y, Liu D, Huang L. An abundant DNA binding protein from the hyperthermophilic archaeon Sulfolobus shibatae affects DNA supercoiling in a temperature-dependent fashion. J Bacteriol. 2000;182:3929-33 pubmed
    ..Taken together, our data suggest that archaeal proteins of the Sac10b family may affect the topology of chromosomal DNA in thermophilic archaea at their growth temperatures. ..
  7. Huo Y, Hu Z, Zhang K, Wang L, Zhai Y, Zhou Q, et al. Crystal structure of group II chaperonin in the open state. Structure. 2010;18:1270-9 pubmed publisher
    ..Structural comparison as well as protease K digestion indicated only ATP binding without hydrolysis does not induce chamber closure of thermosome...
  8. You X, Liu C, Wang S, Jiang C, Shah S, Prangishvili D, et al. Genomic analysis of Acidianus hospitalis W1 a host for studying crenarchaeal virus and plasmid life cycles. Extremophiles. 2011;15:487-97 pubmed publisher
    ..The small and relatively stable genome of A. hospitalis W1 renders it a promising candidate for developing the first Acidianus genetic systems...
  9. An X, Deng Z, Wang T. OsSpo11-4, a rice homologue of the archaeal TopVIA protein, mediates double-strand DNA cleavage and interacts with OsTopVIB. PLoS ONE. 2011;6:e20327 pubmed publisher
    ..We further analyzed the biological function of OsSpo11-4 by RNA interference and found that down-regulated expression of OsSpo11-4 led to defects in male meiosis, indicating OsSpo11-4 is required for meiosis...
  10. Li M, Chen Z, Zhang P, Pan X, Jiang C, An X, et al. Crystal structure studies on sulfur oxygenase reductase from Acidianus tengchongensis. Biochem Biophys Res Commun. 2008;369:919-23 pubmed publisher
    ..Consequently, the binding sites of substrates and a hypothetical catalytic process of SOR were proposed...
  11. Guo L, Feng Y, Zhang Z, Yao H, Luo Y, Wang J, et al. Biochemical and structural characterization of Cren7, a novel chromatin protein conserved among Crenarchaea. Nucleic Acids Res. 2008;36:1129-37 pubmed publisher
    ..These data suggest that the crenarchaeal kingdom in the Archaea shares a common strategy in chromatin organization...
  12. Li M, Liu H, Han J, Liu J, Wang R, Zhao D, et al. Characterization of CRISPR RNA biogenesis and Cas6 cleavage-mediated inhibition of a provirus in the haloarchaeon Haloferax mediterranei. J Bacteriol. 2013;195:867-75 pubmed publisher
    ..These results provide fundamental information for the subtype I-B CRISPR-Cas system in halophilic archaea and suggest diversified mechanisms and multiple physiological functions for the CRISPR-Cas system...
  13. Li L, Ye K. Crystal structure of an H/ACA box ribonucleoprotein particle. Nature. 2006;443:302-7 pubmed
  14. Guo R, Xue H, Huang L. Ssh10b, a conserved thermophilic archaeal protein, binds RNA in vivo. Mol Microbiol. 2003;50:1605-15 pubmed
    ..Our data indicate that RNA is the physiological binding target of the Sac10b family...
  15. Sun F, Huang L. Sulfolobus chromatin proteins modulate strand displacement by DNA polymerase B1. Nucleic Acids Res. 2013;41:8182-95 pubmed publisher
  16. Lai B, Li Y, Cao A, Lai L. Metal ion binding and enzymatic mechanism of Methanococcus jannaschii RNase HII. Biochemistry. 2003;42:785-91 pubmed publisher
    ..On the basis of all these observations, we suggest a metal binding model in which D7, E8, and D112 bind the metal ion and D149 activates a water molecule to attack the P-O bond in the RNA chain of the substrate...
  17. Liu H, Luo Y, Han J, Wu J, Wu Z, Feng D, et al. Proteome reference map of Haloarcula hispanica and comparative proteomic and transcriptomic analysis of polyhydroxyalkanoate biosynthesis under genetic and environmental perturbations. J Proteome Res. 2013;12:1300-15 pubmed publisher
    ..This is the first integrated proteome and transcriptome investigation of PHA biosynthesis and regulation in haloarchaea. It has provided basic information for future systemic engineering of haloarchaea to meet industrial needs...
  18. Liu Y, Zhang N, Liu X, Wang X, Wang Z, Chen Y, et al. Molecular mechanism underlying the interaction of typical Sac10b family proteins with DNA. PLoS ONE. 2012;7:e34986 pubmed publisher
  19. Han J, Hou J, Zhang F, Ai G, Li M, Cai S, et al. Multiple propionyl coenzyme A-supplying pathways for production of the bioplastic poly(3-hydroxybutyrate-co-3-hydroxyvalerate) in Haloferax mediterranei. Appl Environ Microbiol. 2013;79:2922-31 pubmed publisher
    ..These results would provide novel strategies for the production of PHBV with controllable 3HV molar fraction...
  20. Niu Y, Xia Y, Wang S, Li J, Niu C, Li X, et al. A prototypic lysine methyltransferase 4 from archaea with degenerate sequence specificity methylates chromatin proteins Sul7d and Cren7 in different patterns. J Biol Chem. 2013;288:13728-40 pubmed publisher
    ..This study supports the prokaryotic origin model of eukaryotic histone modification enzymes and sheds light on regulation of archaeal chromatin...
  21. Chu X, Wang L, He Y, Dong Z. [Expression and characterization of chaperonin from Sulfolobus solfataricus P2]. Wei Sheng Wu Xue Bao. 2008;48:1324-9 pubmed
    ..Our research has laid a foundation for the further study on the molecular mechanism of thermoacidophilic archaeon. ..
  22. Hu J, Guo L, Wu K, Liu B, Lang S, Huang L. Template-dependent polymerization across discontinuous templates by the heterodimeric primase from the hyperthermophilic archaeon Sulfolobus solfataricus. Nucleic Acids Res. 2012;40:3470-83 pubmed publisher
    ..Our results suggest that SsoPriSL is capable of bridging noncomplementary DNA ends and, therefore, may serve a role in double-strand DNA break repair in Archaea...
  23. Liu H, Han J, Liu X, Zhou J, Xiang H. Development of pyrF-based gene knockout systems for genome-wide manipulation of the archaea Haloferax mediterranei and Haloarcula hispanica. J Genet Genomics. 2011;38:261-9 pubmed publisher
    ..In conclusion, these well-developed knockout systems would greatly accelerate the functional genomic research of these halophilic archaea...
  24. Ye K, Jia R, Lin J, Ju M, Peng J, Xu A, et al. Structural organization of box C/D RNA-guided RNA methyltransferase. Proc Natl Acad Sci U S A. 2009;106:13808-13 pubmed publisher
    ..We also built a model of a native C/D RNP with substrate and fibrillarin in an active conformation. Our results provide insight into the overall organization and mechanism of action of C/D RNA-guided RNA methyltransferases...
  25. Mei S, Sun C, Liu X, Lu Q, Cai L, Li Y, et al. The helix-loop-helix motif at the N terminus of HalI is essential for its immunity function against halocin C8. J Bacteriol. 2008;190:6501-8 pubmed publisher
    ..These results demonstrated that HalI sequestered the activity of HalC8 through specific and direct binding...
  26. Lu Q, Han J, Zhou L, Zhou J, Xiang H. Genetic and biochemical characterization of the poly(3-hydroxybutyrate-co-3-hydroxyvalerate) synthase in Haloferax mediterranei. J Bacteriol. 2008;190:4173-80 pubmed publisher
    ..Taken together, our results indicated that a novel member of the class III PHA synthases, composed of PhaC(Hme) and PhaE(Hme), accounted for the PHBV synthesis in H. mediterranei...
  27. Wang L, Xia B, Jin C. Solution structure of Escherichia coli HypC. Biochem Biophys Res Commun. 2007;361:665-9 pubmed
    ..Sequence alignment and structural comparison reveal that the hydrophobic region on the surface of E. coli HypC, as well as the highly flexible C-terminal helixes, may involve in the interactions of E. coli HypC with other proteins. ..
  28. Wu K, Lai X, Guo X, Hu J, Xiang X, Huang L. Interplay between primase and replication factor C in the hyperthermophilic archaeon Sulfolobus solfataricus. Mol Microbiol. 2007;63:826-37 pubmed
    ..These findings suggest that the primase-RFC interaction modulates the activities of both enzymes and therefore may be involved in the regulation of primer synthesis and the transfer of primers to DNA polymerase in Archaea. ..
  29. Sun C, Li Y, Mei S, Lu Q, Zhou L, Xiang H. A single gene directs both production and immunity of halocin C8 in a haloarchaeal strain AS7092. Mol Microbiol. 2005;57:537-49 pubmed publisher
    ..To our knowledge, this is the first report on halocin immunity, and our results that a single gene encodes both peptide antibiotic and immunity protein also provide a novel immune mechanism for peptide antibiotics...
  30. Chen Z, Jiang C, She Q, Liu S, Zhou P. Key role of cysteine residues in catalysis and subcellular localization of sulfur oxygenase-reductase of Acidianus tengchongensis. Appl Environ Microbiol. 2005;71:621-8 pubmed
    ..We tentatively propose that these enzymes are located in close proximity on the membrane to catalyze sulfur oxidation in A. tengchongensis...
  31. Cui Q, Tong Y, Xue H, Huang L, Feng Y, Wang J. Two conformations of archaeal Ssh10b. The origin of its temperature-dependent interaction with DNA. J Biol Chem. 2003;278:51015-22 pubmed publisher
    ..The two forms of the Ssh10b dimer show the same DNA binding site but have different conformational features that are responsible for the temperature-dependent nature of the Ssh10b-DNA interaction...
  32. Cai S, Cai L, Liu H, Liu X, Han J, Zhou J, et al. Identification of the haloarchaeal phasin (PhaP) that functions in polyhydroxyalkanoate accumulation and granule formation in Haloferax mediterranei. Appl Environ Microbiol. 2012;78:1946-52 pubmed publisher
    ..In addition, BLASTp and phylogenetic results indicate that this type of PhaP is exclusively conserved in haloarchaea, implying that it is a representative of the haloarchaeal type PHA phasin...
  33. Zhu J, Zheng H, Ai G, Zhang G, Liu D, Liu X, et al. The genome characteristics and predicted function of methyl-group oxidation pathway in the obligate aceticlastic methanogens, Methanosaeta spp. PLoS ONE. 2012;7:e36756 pubmed publisher
    ..Quantitative PCR determined that the expression of hdrED was about ten times higher than hdrABC, suggesting that hdrED plays a major role in aceticlastic methanogenesis...
  34. Qi L, Yue L, Feng D, Qi F, Li J, Dong X. Genome-wide mRNA processing in methanogenic archaea reveals post-transcriptional regulation of ribosomal protein synthesis. Nucleic Acids Res. 2017;45:7285-7298 pubmed publisher
    ..In conclusion, our findings suggest that mRNA processing-mediated post-transcriptional regulation is a potential mechanism of ribosomal protein synthesis and stoichiometry. ..