Primary Citation PubMed: 11313498
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Multiple, non-allelic, intein-coding sequences in eukaryotic RNA polymerase genes.
(2006) BMC Biol 4
PubMed: 17069655 | PubMedCentral: PMC1635734 | DOI: 10.1186/1741-7007-4-38
Representation of S. cerevisiae RNA polymerase II (PDB: 1I3Q); the second largest subunit is coloured dark grey (other subunits, including the largest, are coloured light brown).
Using data from the Protein Data Bank [ 44 ] (entry 1I3Q) and the MacPyMOL molecular visualisation system [ 45 ], we highlighted six residues immediately adjacent to each intein insertion site.
Publication Year: 2006
Detecting coevolution in and among protein domains.
(2007) PLoS Comput Biol 3
PubMed: 17983264 | PubMedCentral: PMC2098842 | DOI: 10.1371/journal.pcbi.0030211
Figure S4 The Coevolving Amino Acid Pairs on the PDB Structure of RNA Polymerase (PDB ID 1i3q) (51 KB PDF) Click here for additional data file.
Figure S4 marks the coevolving positions in yeast RNA pol II ([ 27 ], PDB id 1i3q).
Publication Year: 2007
Rearrangement of the RNA polymerase subunit H and the lower jaw in archaeal elongation complexes.
(2010) Nucleic Acids Res 38
PubMed: 20040576 | PubMedCentral: PMC2847245 | DOI: 10.1093/nar/gkp1190
Superposition of the tertiary structures of subunits Rpb5 from yeast based on the RNAP II crystal structure (N-terminal domain coloured in orange and the C-terminal domain in red; PDB ID: 1I3Q; 8) and... of the archaeal subunit H from S. solfataricus (coloured in blue; PDB ID: 2PMZ; 9) generated using DaliLite ( 45 ).
Publication Year: 2010
Composite structural motifs of binding sites for delineating biological functions of proteins.
(2012) PLoS One 7
PubMed: 22347478 | PubMedCentral: PMC3275580 | DOI: 10.1371/journal.pone.0031437
Similarly, there are PDB entries of yeast RNA polymerase II with or without bound DNA/RNA in which the subunit RPB2 (e.g., PDB 1I3Q  , chain B and 1Y1W  , chain B) share some elementary motifs... for protein binding, but other corresponding protein binding sites belong to different elementary motifs due to slight conformational changes (not shown), and an elementary motif for binding DNA is present in only one of the entries; thus these subunits identical in amino acid sequence have different composite motifs which are connected by edges of the common protein binding motifs and of the common sequence.
Publication Year: 2012
Solving the RNA polymerase I structural puzzle.
(2014) Acta Crystallogr D Biol Crystallogr 70
PubMed: 25286842 | PubMedCentral: PMC4188003 | DOI: 10.1107/S1399004714015788
Crystal structures of Pol II were used for initial tests: ten subunits with open (PDB entry 1i3q ) and closed (PDB entry 1i50 ) clamps and 12 subunits (PDB entry 1wcm ) (Cramer et al. , 2001 ▶... ; Kettenberger et al. , 2004 ▶ ).
Publication Year: 2014
PubMed ID is not available.
Published in 2015
(Left) Tertiary structure of Rpo26-(72-155), from the yeast Pol II crystal structure (pdb 1I3Q), with the N and C termini indicated.
(A) Annotated structure of Rpo26 (from pdb 1I3Q) highlighting atomic interactions (dashed lines) of selected side chains and main chain atoms (depicted as stick models with beige carbons).
Publication Year: 2015
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