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PDBsum entry 1a1d
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Nucleotidyltransferase
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PDB id
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1a1d
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Contents |
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* Residue conservation analysis
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* C-alpha coords only
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PDB id:
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Nucleotidyltransferase
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Title:
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Yeast RNA polymerase subunit rpb8, nmr, minimized average structure, alpha carbons only
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Structure:
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RNA polymerase. Chain: a. Fragment: subunit rpb8. Engineered: yes
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Source:
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Saccharomyces cerevisiae. Baker's yeast. Organism_taxid: 4932. Expressed in: escherichia coli bl21. Expression_system_taxid: 511693.
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NMR struc:
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1 models
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Authors:
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S.Krapp,G.Kelly,J.Reischl,R.Weinzierl,S.Matthews
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Key ref:
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S.Krapp
et al.
(1998).
Eukaryotic RNA polymerase subunit RPB8 is a new relative of the OB family.
Nat Struct Biol,
5,
110-114.
PubMed id:
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Date:
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10-Dec-97
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Release date:
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02-Mar-99
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Headers
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References
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P20436
(RPAB3_YEAST) -
DNA-directed RNA polymerases I, II, and III subunit RPABC3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
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Seq:
Struc:
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146 a.a.
146 a.a.
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Key: |
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PfamA domain |
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Secondary structure |
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Enzyme class:
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E.C.2.7.7.6
- DNA-directed Rna polymerase.
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Reaction:
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RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate
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RNA(n)
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+
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ribonucleoside 5'-triphosphate
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=
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RNA(n+1)
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+
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diphosphate
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Molecule diagrams generated from .mol files obtained from the
KEGG ftp site
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Nat Struct Biol
5:110-114
(1998)
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PubMed id:
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Eukaryotic RNA polymerase subunit RPB8 is a new relative of the OB family.
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S.Krapp,
G.Kelly,
J.Reischl,
R.O.Weinzierl,
S.Matthews.
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ABSTRACT
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RNA polymerase II subunit RPB8 is an essential subunit that is highly conserved
throughout eukaryotic evolution and is present in all three types of nuclear RNA
polymerases. We report the first high resolution structural insight into
eukaryotic RNA polymerase architecture with the solution structure of RPB8 from
Saccharomyces cerevisiae. It consists of an eight stranded, antiparallel
beta-barrel, four short helical regions and a large, unstructured omega-loop.
The strands are connected in classic Greek-key fashion. The overall topology is
unusual and contains a striking C2 rotational symmetry. Furthermore, it is most
likely a novel associate of the oligonucleotide/oligosaccharide (OB) binding
protein class.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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E.V.Koonin,
K.S.Makarova,
and
J.G.Elkins
(2007).
Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are conserved in hyperthermophilic Crenarchaeota and "Korarchaeota".
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Biol Direct,
2,
38.
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F.Werner
(2007).
Structure and function of archaeal RNA polymerases.
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Mol Microbiol,
65,
1395-1404.
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X.Kang,
Y.Hu,
Y.Li,
X.Guo,
X.Jiang,
L.Lai,
B.Xia,
and
C.Jin
(2006).
Structural, biochemical, and dynamic characterizations of the hRPB8 subunit of human RNA polymerases.
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J Biol Chem,
281,
18216-18226.
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PDB code:
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S.de Bono,
L.Riechmann,
E.Girard,
R.L.Williams,
and
G.Winter
(2005).
A segment of cold shock protein directs the folding of a combinatorial protein.
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Proc Natl Acad Sci U S A,
102,
1396-1401.
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PDB code:
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K.D.Westover,
D.A.Bushnell,
and
R.D.Kornberg
(2004).
Structural basis of transcription: separation of RNA from DNA by RNA polymerase II.
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Science,
303,
1014-1016.
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PDB codes:
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N.Bischler,
L.Brino,
C.Carles,
M.Riva,
H.Tschochner,
V.Mallouh,
and
P.Schultz
(2002).
Localization of the yeast RNA polymerase I-specific subunits.
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EMBO J,
21,
4136-4144.
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J.F.Briand,
F.Navarro,
P.Rematier,
C.Boschiero,
S.Labarre,
M.Werner,
G.V.Shpakovski,
and
P.Thuriaux
(2001).
Partners of Rpb8p, a small subunit shared by yeast RNA polymerases I, II and III.
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Mol Cell Biol,
21,
6056-6065.
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F.Todone,
R.O.Weinzierl,
P.Brick,
and
S.Onesti
(2000).
Crystal structure of RPB5, a universal eukaryotic RNA polymerase subunit and transcription factor interaction target.
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Proc Natl Acad Sci U S A,
97,
6306-6310.
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PDB code:
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M.Kimura,
and
A.Ishihama
(2000).
Involvement of multiple subunit-subunit contacts in the assembly of RNA polymerase II.
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Nucleic Acids Res,
28,
952-959.
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P.Cramer,
D.A.Bushnell,
J.Fu,
A.L.Gnatt,
B.Maier-Davis,
N.E.Thompson,
R.R.Burgess,
A.M.Edwards,
P.R.David,
and
R.D.Kornberg
(2000).
Architecture of RNA polymerase II and implications for the transcription mechanism.
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Science,
288,
640-649.
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PDB code:
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N.A.Woychik
(1998).
Fractions to functions: RNA polymerase II thirty years later.
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Cold Spring Harb Symp Quant Biol,
63,
311-317.
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The most recent references are shown first.
Citation data come partly from CiteXplore and partly
from an automated harvesting procedure. Note that this is likely to be
only a partial list as not all journals are covered by
either method. However, we are continually building up the citation data
so more and more references will be included with time.
Where a reference describes a PDB structure, the PDB
code is
shown on the right.
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Links
