Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Structure of the plant plastid-encoded RNA polymerase.
Journal, issue, pages	Cell, Vol. 187, Issue 5, Page 1145-1159.e21, Year 2024
Publish date	Feb 29, 2024
Authors	Ángel Vergara-Cruces / Ishika Pramanick / David Pearce / Vinod K Vogirala / Matthew J Byrne / Jason K K Low / Michael W Webster /
PubMed Abstract	Chloroplast genes encoding photosynthesis-associated proteins are predominantly transcribed by the plastid-encoded RNA polymerase (PEP). PEP is a multi-subunit complex composed of plastid-encoded ...Chloroplast genes encoding photosynthesis-associated proteins are predominantly transcribed by the plastid-encoded RNA polymerase (PEP). PEP is a multi-subunit complex composed of plastid-encoded subunits similar to bacterial RNA polymerases (RNAPs) stably bound to a set of nuclear-encoded PEP-associated proteins (PAPs). PAPs are essential to PEP activity and chloroplast biogenesis, but their roles are poorly defined. Here, we present cryoelectron microscopy (cryo-EM) structures of native 21-subunit PEP and a PEP transcription elongation complex from white mustard (Sinapis alba). We identify that PAPs encase the core polymerase, forming extensive interactions that likely promote complex assembly and stability. During elongation, PAPs interact with DNA downstream of the transcription bubble and with the nascent mRNA. The models reveal details of the superoxide dismutase, lysine methyltransferase, thioredoxin, and amino acid ligase enzymes that are subunits of PEP. Collectively, these data provide a foundation for the mechanistic understanding of chloroplast transcription and its role in plant growth and adaptation.
External links	Cell / PubMed:38428394
Methods	EM (single particle)
Resolution	2.3 - 5.0 Å
Structure data	EMDB-18920: Plastid-encoded RNA polymerase (consensus map) Method: EM (single particle) / Resolution: 2.49 Å 18935 8r5o 8r6s EMDB-18935, PDB-8r5o: Plastid-encoded RNA polymerase PDB-8r6s: Plastid-encoded RNA polymerase (Integrated model) Method: EM (single particle) / Resolution: 2.49 Å EMDB-18952: Plastid-encoded RNA polymerase transcription elongation complex (consensus map) Method: EM (single particle) / Resolution: 2.62 Å EMDB-18964: Plastid-encoded RNA polymerase (Region 1) Method: EM (single particle) / Resolution: 2.4 Å EMDB-18965: Plastid-encoded RNA polymerase (Region 2) Method: EM (single particle) / Resolution: 2.4 Å EMDB-18974: Plastid-encoded RNA polymerase (Region 3) Method: EM (single particle) / Resolution: 2.3 Å EMDB-18975: Plastid-encoded RNA polymerase (Region 4) Method: EM (single particle) / Resolution: 2.4 Å EMDB-18976: Plastid-encoded RNA polymerase (Region 5) Method: EM (single particle) / Resolution: 2.4 Å EMDB-18982: Plastid-encoded RNA polymerase (Region 6) Method: EM (single particle) / Resolution: 2.3 Å EMDB-18983: Plastid-encoded RNA polymerase (Region 8) Method: EM (single particle) / Resolution: 2.9 Å EMDB-18985: Plastid-encoded RNA polymerase (Region 9) Method: EM (single particle) / Resolution: 2.7 Å EMDB-18986: Plastid-encoded RNA polymerase transcription elongation complex (Region 1) Method: EM (single particle) / Resolution: 2.9 Å EMDB-18995: Plastid-encoded RNA polymerase transcription elongation complex (Region 2) Method: EM (single particle) / Resolution: 3.1 Å EMDB-18996: Plastid-encoded RNA polymerase transcription elongation complex (Region 3) Method: EM (single particle) / Resolution: 3.1 Å EMDB-18998: Plastid-encoded RNA polymerase (Region 7) Method: EM (single particle) / Resolution: 2.4 Å EMDB-19007: Plastid-encoded RNA polymerase transcription elongation complex (Region 4) Method: EM (single particle) / Resolution: 3.19 Å EMDB-19010: Plastid-encoded RNA polymerase transcription elongation complex (PAP2-mRNA) Method: EM (single particle) / Resolution: 5.0 Å 19023 8ras 8rdj EMDB-19023, PDB-8ras: Plastid-encoded RNA polymerase transcription elongation complex PDB-8rdj: Plastid-encoded RNA polymerase transcription elongation complex (Integrated model) Method: EM (single particle) / Resolution: 2.62 Å
Chemicals	ChemComp-ZN: Unknown entry ChemComp-FE: Unknown entry / Iron ChemComp-SAH: S-ADENOSYL-L-HOMOCYSTEINE / S-Adenosyl-L-homocysteine ChemComp-HOH: WATER / Water ChemComp-MG: Unknown entry
Source	sinapis alba (white mustard) dna molecule (others) synthetic construct (others)
Keywords	GENE REGULATION / Transcription / chloroplast / RNA polymerase / photosynthesis