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	Conservative transcription in three steps visualized in a double-stranded RNA virus.
Journal, issue, pages	Nat Struct Mol Biol, Vol. 26, Issue 11, Page 1023-1034, Year 2019
Publish date	Nov 6, 2019
Authors	Yanxiang Cui / Yinong Zhang / Kang Zhou / Jingchen Sun / Z Hong Zhou /
PubMed Abstract	Endogenous RNA transcription characterizes double-stranded RNA (dsRNA) viruses in the Reoviridae, a family that is exemplified by its simple, single-shelled member cytoplasmic polyhedrosis virus (CPV) ...Endogenous RNA transcription characterizes double-stranded RNA (dsRNA) viruses in the Reoviridae, a family that is exemplified by its simple, single-shelled member cytoplasmic polyhedrosis virus (CPV). Because of the lack of in situ structures of the intermediate stages of RNA-dependent RNA polymerase (RdRp) during transcription, it is poorly understood how RdRp detects environmental cues and internal transcriptional states to initiate and coordinate repeated cycles of transcript production inside the capsid. Here, we captured five high-resolution (2.8-3.5 Å) RdRp-RNA in situ structures-representing quiescent, initiation, early elongation, elongation and abortive states-under seven experimental conditions of CPV. We observed the 'Y'-form initial RNA fork in the initiation state and the complete transcription bubble in the elongation state. These structures reveal that de novo RNA transcription involves three major conformational changes during state transitions. Our results support an ouroboros model for endogenous conservative transcription in dsRNA viruses.
External links	Nat Struct Mol Biol / PubMed:31695188 / PubMed Central
Methods	EM (single particle)
Resolution	2.8 - 4.1 Å
Structure data	20581 6ty8 EMDB-20581, PDB-6ty8: In situ structure of BmCPV RNA dependent RNA polymerase at quiescent state Method: EM (single particle) / Resolution: 3.0 Å 20582 6ty9 EMDB-20582, PDB-6ty9: In situ structure of BmCPV RNA dependent RNA polymerase at initiation state Method: EM (single particle) / Resolution: 2.9 Å 20585 6tz0 EMDB-20585, PDB-6tz0: In situ structure of BmCPV RNA-dependent RNA polymerase at abortive state Method: EM (single particle) / Resolution: 2.8 Å 20586 6tz1 EMDB-20586, PDB-6tz1: In situ structure of BmCPV RNA-dependent RNA polymerase at early-elongation state Method: EM (single particle) / Resolution: 3.4 Å 20587 6tz2 EMDB-20587, PDB-6tz2: In situ structure of BmCPV RNA-dependent RNA polymerase at elongation state Method: EM (single particle) / Resolution: 3.5 Å EMDB-20595: BmCPV virion Method: EM (single particle) / Resolution: 3.7 Å EMDB-20596: BmCPV virion with SAM Method: EM (single particle) / Resolution: 3.9 Å EMDB-20597: BmCPV virion with SAM and GTP Method: EM (single particle) / Resolution: 3.7 Å EMDB-20598: BmCPV virion with SAM and ATP Method: EM (single particle) / Resolution: 4.0 Å EMDB-20599: BmCPV virion with SAM, GTP, and ATP Method: EM (single particle) / Resolution: 3.1 Å EMDB-20600: BmCPV virion with SAM, GTP, ATP, and UTP Method: EM (single particle) / Resolution: 3.6 Å EMDB-20601: BmCPV virion with SAM, GTP, ATP, UTP, and CTP Method: EM (single particle) / Resolution: 4.1 Å
Chemicals	ChemComp-GTA: P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE ChemComp-MG: Unknown entry ChemComp-ATP: ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying moleculeYM ChemComp-UTP: URIDINE 5'-TRIPHOSPHATE / UTPYM
Source	bombyx mori cytoplasmic polyhedrosis virus
Keywords	VIRAL PROTEIN / TRANSFERASE / RdRp / TRANSFERASE/RNA / RdRp-RNA complex / Initiation / Unwinding / Cap-binding / TRANSFERASE-RNA complex / Early-elongation / Elongation / Transcription Bubble