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Volumn 43, Issue 3, 2015, Pages 1918-1926

The solution structure of the pentatricopeptide repeat protein PPR10 upon binding atpH RNA

Author keywords

[No Author keywords available]

Indexed keywords

ATPH RNA; MONOMER; PENTATRICOPEPTIDE REPEAT PROTEIN 10; RNA; RNA BINDING PROTEIN; UNCLASSIFIED DRUG; PLANT PROTEIN; PLANT RNA;

EID: 84928962376     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkv027     Document Type: Article
Times cited : (55)

References (45)
  • 1
    • 0033965922 scopus 로고    scopus 로고
    • The PPR motif - A TPR-related motif prevalent in plant organellar proteins
    • Small,I.D. and Peeters,N. (2000) The PPR motif - a TPR-related motif prevalent in plant organellar proteins. Trends Biochem. Sci., 25, 46-47.
    • (2000) Trends Biochem. Sci. , vol.25 , pp. 46-47
    • Small, I.D.1    Peeters, N.2
  • 2
    • 84899745039 scopus 로고    scopus 로고
    • Pentatricopeptide repeat proteins in plants
    • Barkan,A. and Small,I. (2014) Pentatricopeptide repeat proteins in plants. Annu. Rev. Plant Biol., 65, 415-442.
    • (2014) Annu. Rev. Plant Biol. , vol.65 , pp. 415-442
    • Barkan, A.1    Small, I.2
  • 4
    • 50249171238 scopus 로고    scopus 로고
    • The pentatricopeptide repeat protein PPR5 stabilizes a specific tRNA precursor in maize chloroplasts
    • Beick,S., Schmitz-Linneweber,C., Williams-Carrier,R., Jensen,B. and Barkan,A. (2008) The pentatricopeptide repeat protein PPR5 stabilizes a specific tRNA precursor in maize chloroplasts. Mol. Cell. Biol., 28, 5337-5347.
    • (2008) Mol. Cell. Biol. , vol.28 , pp. 5337-5347
    • Beick, S.1    Schmitz-Linneweber, C.2    Williams-Carrier, R.3    Jensen, B.4    Barkan, A.5
  • 5
    • 67651171648 scopus 로고    scopus 로고
    • 5′ and 3′ ends of chloroplast transcripts can both be stabilised by protein 'caps': A new model for polycistronic RNA maturation
    • Choquet,Y. (2009) 5′ and 3′ ends of chloroplast transcripts can both be stabilised by protein 'caps': a new model for polycistronic RNA maturation. EMBO J., 28, 1989-1990.
    • (2009) EMBO J. , vol.28 , pp. 1989-1990
    • Choquet, Y.1
  • 6
    • 78651068887 scopus 로고    scopus 로고
    • Mechanism of RNA stabilization and translational activation by a pentatricopeptide repeat protein
    • Prikryl,J., Rojas,M., Schuster,G. and Barkan,A. (2011) Mechanism of RNA stabilization and translational activation by a pentatricopeptide repeat protein. Proc. Natl. Acad. Sci. U.S.A., 108, 415-420.
    • (2011) Proc. Natl. Acad. Sci. U.S.A. , vol.108 , pp. 415-420
    • Prikryl, J.1    Rojas, M.2    Schuster, G.3    Barkan, A.4
  • 7
    • 33845986746 scopus 로고    scopus 로고
    • A pentatricopeptide repeat protein is a site recognition factor in chloroplast RNA editing
    • Okuda,K., Nakamura,T., Sugita,M., Shimizu,T. and Shikanai,T. (2006) A pentatricopeptide repeat protein is a site recognition factor in chloroplast RNA editing. J. Biol. Chem., 281, 37661-37667.
    • (2006) J. Biol. Chem. , vol.281 , pp. 37661-37667
    • Okuda, K.1    Nakamura, T.2    Sugita, M.3    Shimizu, T.4    Shikanai, T.5
  • 8
    • 50649095496 scopus 로고    scopus 로고
    • Sequence-specific binding of a chloroplast pentatricopeptide repeat protein to its native group II intron ligand
    • Williams-Carrier,R., Kroeger,T. and Barkan,A. (2008) Sequence-specific binding of a chloroplast pentatricopeptide repeat protein to its native group II intron ligand. RNA, 14, 1930-1941.
    • (2008) RNA , vol.14 , pp. 1930-1941
    • Williams-Carrier, R.1    Kroeger, T.2    Barkan, A.3
  • 9
    • 37749036789 scopus 로고    scopus 로고
    • Pentatricopeptide repeat (PPR) proteins as sequence-specificity factors in post-transcriptional processes in organelles
    • Delannoy,E., Stanley,W.A., Bond,C.S. and Small,I.D. (2007) Pentatricopeptide repeat (PPR) proteins as sequence-specificity factors in post-transcriptional processes in organelles. Biochem. Soc. Trans., 35, 1643-1647.
    • (2007) Biochem. Soc. Trans. , vol.35 , pp. 1643-1647
    • Delannoy, E.1    Stanley, W.A.2    Bond, C.S.3    Small, I.D.4
  • 11
    • 84868471721 scopus 로고    scopus 로고
    • The pentatricopeptide repeat-SMR protein ATP4 promotes translation of the chloroplast atpB/E mRNA
    • Zoschke,R., Kroeger,T., Belcher,S., Schottler,M.A., Barkan,A. and Schmitz-Linneweber,C. (2012) The pentatricopeptide repeat-SMR protein ATP4 promotes translation of the chloroplast atpB/E mRNA. Plant J., 72, 547-558.
    • (2012) Plant J. , vol.72 , pp. 547-558
    • Zoschke, R.1    Kroeger, T.2    Belcher, S.3    Schottler, M.A.4    Barkan, A.5    Schmitz-Linneweber, C.6
  • 12
    • 84876670588 scopus 로고    scopus 로고
    • Mutation of the pentatricopeptide repeat-SMR protein SVR7 impairs accumulation and translation of chloroplast ATP synthase subunits in Arabidopsis thaliana
    • Zoschke,R., Qu,Y., Zubo,Y.O., Borner,T. and Schmitz-Linneweber,C. (2013) Mutation of the pentatricopeptide repeat-SMR protein SVR7 impairs accumulation and translation of chloroplast ATP synthase subunits in Arabidopsis thaliana. J. Plant Res., 126, 403-414.
    • (2013) J. Plant Res. , vol.126 , pp. 403-414
    • Zoschke, R.1    Qu, Y.2    Zubo, Y.O.3    Borner, T.4    Schmitz-Linneweber, C.5
  • 13
    • 67651171227 scopus 로고    scopus 로고
    • Site-specific binding of a PPR protein defines and stabilizes 5′ and 3′ mRNA termini in chloroplasts
    • Pfalz,J., Bayraktar,O.A., Prikryl,J. and Barkan,A. (2009) Site-specific binding of a PPR protein defines and stabilizes 5′ and 3′ mRNA termini in chloroplasts. EMBO J., 28, 2042-2052.
    • (2009) EMBO J. , vol.28 , pp. 2042-2052
    • Pfalz, J.1    Bayraktar, O.A.2    Prikryl, J.3    Barkan, A.4
  • 14
    • 0028272427 scopus 로고
    • A nuclear mutation in maize blocks the processing and translation of several chloroplast mRNAs and provides evidence for the differential translation of alternative mRNA forms
    • Barkan,A., Walker,M., Nolasco,M. and Johnson,D. (1994) A nuclear mutation in maize blocks the processing and translation of several chloroplast mRNAs and provides evidence for the differential translation of alternative mRNA forms. EMBO J., 13, 3170-3181.
    • (1994) EMBO J. , vol.13 , pp. 3170-3181
    • Barkan, A.1    Walker, M.2    Nolasco, M.3    Johnson, D.4
  • 15
    • 0036678039 scopus 로고    scopus 로고
    • A pentatricopeptide repeat-containing gene restores fertility to cytoplasmic male-sterile plants
    • Bentolila,S., Alfonso,A.A. and Hanson,M.R. (2002) A pentatricopeptide repeat-containing gene restores fertility to cytoplasmic male-sterile plants. Proc. Natl. Acad. Sci. U.S.A., 99, 10887-10892.
    • (2002) Proc. Natl. Acad. Sci. U.S.A. , vol.99 , pp. 10887-10892
    • Bentolila, S.1    Alfonso, A.A.2    Hanson, M.R.3
  • 16
    • 2942724487 scopus 로고    scopus 로고
    • Positional cloning of the rice Rf-1 gene, a restorer of BT-type cytoplasmic male sterility that encodes a mitochondria-targeting PPR protein
    • Akagi,H., Nakamura,A., Yokozeki-Misono,Y., Inagaki,A., Takahashi,H., Mori,K. and Fujimura,T. (2004) Positional cloning of the rice Rf-1 gene, a restorer of BT-type cytoplasmic male sterility that encodes a mitochondria-targeting PPR protein. Theor. App. Gen., 108, 1449-1457.
    • (2004) Theor. App. Gen. , vol.108 , pp. 1449-1457
    • Akagi, H.1    Nakamura, A.2    Yokozeki-Misono, Y.3    Inagaki, A.4    Takahashi, H.5    Mori, K.6    Fujimura, T.7
  • 18
    • 20444412435 scopus 로고    scopus 로고
    • Arabidopsis emb175 and other ppr knockout mutants reveal essential roles for pentatricopeptide repeat (PPR) proteins in plant embryogenesis
    • Cushing,D.A., Forsthoefel,N.R., Gestaut,D.R. and Vernon,D.M. (2005) Arabidopsis emb175 and other ppr knockout mutants reveal essential roles for pentatricopeptide repeat (PPR) proteins in plant embryogenesis. Planta, 221, 424-436.
    • (2005) Planta , vol.221 , pp. 424-436
    • Cushing, D.A.1    Forsthoefel, N.R.2    Gestaut, D.R.3    Vernon, D.M.4
  • 19
    • 84866145891 scopus 로고    scopus 로고
    • A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins
    • Barkan,A., Rojas,M., Fujii,S., Yap,A., Chong,Y.S., Bond,C.S. and Small,I. (2012) A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins. PLoS Genet., 8, 1002910.
    • (2012) PLoS Genet. , vol.8
    • Barkan, A.1    Rojas, M.2    Fujii, S.3    Yap, A.4    Chong, Y.S.5    Bond, C.S.6    Small, I.7
  • 20
    • 84878784240 scopus 로고    scopus 로고
    • Improved computational target site prediction for pentatricopeptide repeat RNA editing factors
    • Takenaka,M., Zehrmann,A., Brennicke,A. and Graichen,K. (2013) Improved computational target site prediction for pentatricopeptide repeat RNA editing factors. PLoS One, 8, e65343.
    • (2013) PLoS One , vol.8
    • Takenaka, M.1    Zehrmann, A.2    Brennicke, A.3    Graichen, K.4
  • 21
    • 84874588115 scopus 로고    scopus 로고
    • Elucidation of the RNA recognition code for pentatricopeptide repeat proteins involved in organelle RNA editing in plants
    • Yagi,Y., Hayashi,S., Kobayashi,K., Hirayama,T. and Nakamura,T. (2013) Elucidation of the RNA recognition code for pentatricopeptide repeat proteins involved in organelle RNA editing in plants. PLoS One, 8, e57286.
    • (2013) PLoS One , vol.8
    • Yagi, Y.1    Hayashi, S.2    Kobayashi, K.3    Hirayama, T.4    Nakamura, T.5
  • 22
    • 84885087930 scopus 로고    scopus 로고
    • Pentatricopeptide repeats: Modular blocks for building RNA-binding proteins
    • Filipovska,A. and Rackham,O. (2013) Pentatricopeptide repeats: modular blocks for building RNA-binding proteins. RNA Biol., 10, 1426-1432.
    • (2013) RNA Biol. , vol.10 , pp. 1426-1432
    • Filipovska, A.1    Rackham, O.2
  • 23
    • 84901620558 scopus 로고    scopus 로고
    • The potential for manipulating RNA with pentatricopeptide repeat proteins
    • Yagi,Y., Nakamura,T. and Small,I. (2014) The potential for manipulating RNA with pentatricopeptide repeat proteins. Plant J., 78, 772-782.
    • (2014) Plant J. , vol.78 , pp. 772-782
    • Yagi, Y.1    Nakamura, T.2    Small, I.3
  • 24
    • 79952166885 scopus 로고    scopus 로고
    • Selection patterns on restorer-like genes reveal a conflict between nuclear and mitochondrial genomes throughout angiosperm evolution
    • Fujii,S., Bond,C.S. and Small,I.D. (2011) Selection patterns on restorer-like genes reveal a conflict between nuclear and mitochondrial genomes throughout angiosperm evolution. Proc. Natl. Acad. Sci. U.S.A., 108, 1723-1728.
    • (2011) Proc. Natl. Acad. Sci. U.S.A. , vol.108 , pp. 1723-1728
    • Fujii, S.1    Bond, C.S.2    Small, I.D.3
  • 26
    • 84867071659 scopus 로고    scopus 로고
    • Mitochondrial ribonuclease P structure provides insight into the evolution of catalytic strategies for precursor-tRNA 5′ processing
    • Howard,M.J., Lim,W.H., Fierke,C.A. and Koutmos,M. (2012) Mitochondrial ribonuclease P structure provides insight into the evolution of catalytic strategies for precursor-tRNA 5′ processing. Proc. Natl. Acad. Sci. U.S.A., 109, 16149-16154.
    • (2012) Proc. Natl. Acad. Sci. U.S.A. , vol.109 , pp. 16149-16154
    • Howard, M.J.1    Lim, W.H.2    Fierke, C.A.3    Koutmos, M.4
  • 27
    • 84887026856 scopus 로고    scopus 로고
    • Structure of a PLS-class pentatricopeptide repeat protein provides insights into mechanism of RNA recognition
    • Ban,T., Ke,J., Chen,R., Gu,X., Tan,M.H.E., Zhou,X.E., Kang,Y., Melcher,K., Zhu,J.-K. and Xu,H.E. (2013) Structure of a PLS-class pentatricopeptide repeat protein provides insights into mechanism of RNA recognition. J. Biol. Chem., 288, 31540-31548.
    • (2013) J. Biol. Chem. , vol.288 , pp. 31540-31548
    • Ban, T.1    Ke, J.2    Chen, R.3    Gu, X.4    Tan, M.H.E.5    Zhou, X.E.6    Kang, Y.7    Melcher, K.8    Zhu, J.-K.9    Xu, H.E.10
  • 30
    • 84889567382 scopus 로고    scopus 로고
    • Structural basis for the modular recognition of single-stranded RNA by PPR proteins
    • Yin,P., Li,Q., Yan,C., Liu,Y., Liu,J., Yu,F., Wang,Z., Long,J., He,J., Wang,H.W. et al. (2013) Structural basis for the modular recognition of single-stranded RNA by PPR proteins. Nature, 504, 168-171.
    • (2013) Nature , vol.504 , pp. 168-171
    • Yin, P.1    Li, Q.2    Yan, C.3    Liu, Y.4    Liu, J.5    Yu, F.6    Wang, Z.7    Long, J.8    He, J.9    Wang, H.W.10
  • 32
    • 0014592230 scopus 로고
    • Computed circular dichroism spectra for the evaluation of protein conformation
    • Greenfield,N.J. and Fasman,G.D. (1969) Computed circular dichroism spectra for the evaluation of protein conformation. Biochemistry, 8, 4108-4116.
    • (1969) Biochemistry , vol.8 , pp. 4108-4116
    • Greenfield, N.J.1    Fasman, G.D.2
  • 33
    • 0015937178 scopus 로고
    • Interaction of an apolipoprotein (apoLP-alanine) with phosphatidylcholine
    • Morrisett,J.D., David,J.S.K., Pownall,H.J. and Gotto,A.M. (1973) Interaction of an apolipoprotein (apoLP-alanine) with phosphatidylcholine. Biochemistry, 12, 1290-1299.
    • (1973) Biochemistry , vol.12 , pp. 1290-1299
    • Morrisett, J.D.1    David, J.S.K.2    Pownall, H.J.3    Gotto, A.M.4
  • 35
    • 84887928946 scopus 로고    scopus 로고
    • Fibrinogen species as resolved by HPLC-SAXS data processing within the UltraScan Solution Modeler (US-SOMO) enhanced SAS module
    • Brookes,E., Perez,J., Cardinali,B., Profumo,A., Vachette,P. and Rocco,M. (2013) Fibrinogen species as resolved by HPLC-SAXS data processing within the UltraScan Solution Modeler (US-SOMO) enhanced SAS module. J. Appl. Crystallogr., 46, 1823-1833.
    • (2013) J. Appl. Crystallogr. , vol.46 , pp. 1823-1833
    • Brookes, E.1    Perez, J.2    Cardinali, B.3    Profumo, A.4    Vachette, P.5    Rocco, M.6
  • 38
    • 0026244044 scopus 로고
    • GNOM - A program package for small-angle scattering data processing
    • Semenyuk,A.V. and Svergun,D.I. (1991) GNOM - a program package for small-angle scattering data processing. J. Appl. Crystallogr., 24, 537-540.
    • (1991) J. Appl. Crystallogr. , vol.24 , pp. 537-540
    • Semenyuk, A.V.1    Svergun, D.I.2
  • 39
    • 0037393441 scopus 로고    scopus 로고
    • Easy editing of Protein Data Bank formatted files with EMACS
    • Bond,C.S. (2003) Easy editing of Protein Data Bank formatted files with EMACS. J. Appl. Crystallogr., 36, 350-351.
    • (2003) J. Appl. Crystallogr. , vol.36 , pp. 350-351
    • Bond, C.S.1
  • 40
    • 23244455562 scopus 로고    scopus 로고
    • Global rigid body modeling of macromolecular complexes against small-angle scattering data
    • Petoukhov,M.V. and Svergun,D.I. (2005) Global rigid body modeling of macromolecular complexes against small-angle scattering data. Biophys. J., 89, 1237-1250.
    • (2005) Biophys. J. , vol.89 , pp. 1237-1250
    • Petoukhov, M.V.1    Svergun, D.I.2
  • 41
    • 0029185933 scopus 로고
    • CRYSOL - A program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates
    • Svergun,D., Barberato,C. and Koch,M.H.J. (1995) CRYSOL - a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates. J. Appl. Crystallogr., 28, 768-773.
    • (1995) J. Appl. Crystallogr. , vol.28 , pp. 768-773
    • Svergun, D.1    Barberato, C.2    Koch, M.H.J.3
  • 42
    • 0030845843 scopus 로고    scopus 로고
    • Model building and refinement practice
    • Kleywegt,G. J. and Jones,T. A. (1997) Model building and refinement practice. Methods Enzymol., 277, 208-230.
    • (1997) Methods Enzymol. , vol.277 , pp. 208-230
    • Kleywegt, G.J.1    Jones, T.A.2
  • 43
    • 72449188596 scopus 로고    scopus 로고
    • NADPH oxidase activator p67(phox) behaves in solution as a multidomain protein with semi-flexible linkers
    • Durand,D., Vives,C., Cannella,D., Perez,J., Pebay-Peyroula,E., Vachette,P. and Fieschi,F. (2010) NADPH oxidase activator p67(phox) behaves in solution as a multidomain protein with semi-flexible linkers. J. Struct. Biol., 169, 45-53.
    • (2010) J. Struct. Biol. , vol.169 , pp. 45-53
    • Durand, D.1    Vives, C.2    Cannella, D.3    Perez, J.4    Pebay-Peyroula, E.5    Vachette, P.6    Fieschi, F.7
  • 44
    • 75649147383 scopus 로고    scopus 로고
    • Determination of the molecular weight of proteins in solution from a single small-angle X-ray scattering measurement on a relative scale
    • Fischer,H., de Oliveira Neto,M., Napolitano,H.B., Polikarpov,I. and Craievich,A.F. (2010) Determination of the molecular weight of proteins in solution from a single small-angle X-ray scattering measurement on a relative scale. J. Appl. Crystallogr., 43, 101-109.
    • (2010) J. Appl. Crystallogr. , vol.43 , pp. 101-109
    • Fischer, H.1    De Oliveira Neto, M.2    Napolitano, H.B.3    Polikarpov, I.4    Craievich, A.F.5
  • 45
    • 84909594478 scopus 로고    scopus 로고
    • Examination of the dimerization states of the single-stranded RNA recognition Protein Pentatricopeptide Repeat 10 (PPR10)
    • Li,Q., Yan,C., Xu,H., Wang,Z., Long,J., Li,W., Wu,J., Yin,P. and Yan,N. (2014) Examination of the dimerization states of the single-stranded RNA recognition Protein Pentatricopeptide Repeat 10 (PPR10). J. Biol. Chem., 289, 31503-31512.
    • (2014) J. Biol. Chem. , vol.289 , pp. 31503-31512
    • Li, Q.1    Yan, C.2    Xu, H.3    Wang, Z.4    Long, J.5    Li, W.6    Wu, J.7    Yin, P.8    Yan, N.9


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