PDBsum entry 5fj9

Transcription

PDB id: 5fj9

Contents

Protein chains

1412 a.a.

1114 a.a.

335 a.a.

119 a.a.

215 a.a.

83 a.a.

191 a.a.

140 a.a.

92 a.a.

67 a.a.

101 a.a.

45 a.a.

165 a.a.

105 a.a.

528 a.a.

98 a.a.

70 a.a.

Metals

_ZN ×6

PDB id:

5fj9

Name:

Transcription

Title:

Cryo-em structure of yeast apo RNA polymerase iii at 4.6 a

Structure:

DNA-directed RNA polymerase iii subunit rpc1. Chain: a. Synonym: RNA polymerase iii subunit c1, DNA-directed RNA polymerase iii largest subunit, RNA polymerase iii subunit c160, RNA polymerase iii. DNA-directed RNA polymerase iii subunit rpc2. Chain: b. Synonym: RNA polymerase iii subunit c2, c128, DNA-directed RNA polymerase iii 130 kda polypeptide, RNA polymerase iii.

Source:

Saccharomyces cerevisiae. Baker's yeast. Organism_taxid: 4932. Organism_taxid: 4932

Authors:

N.A.Hoffmann,A.J.Jakobi,M.Moreno-Morcillo,S.Glatt,J.Kosinski, W.J.Hagen,C.Sachse,C.W.Muller

Key ref:

N.A.Hoffmann et al. (2015). Molecular structures of unbound and transcribing RNA polymerase III. Nature, 528, 231-236. PubMed id: 26605533 DOI: 10.1038/nature16143

Date:

06-Oct-15 Release date: 25-Nov-15

Protein chain

P04051  (RPC1_YEAST) -  DNA-directed RNA polymerase III subunit RPC1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 1460 a.a.

Struc: 1412 a.a.

Protein chain

P22276  (RPC2_YEAST) -  DNA-directed RNA polymerase III subunit RPC2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 1149 a.a.

Struc: 1114 a.a.

Protein chain

P07703  (RPAC1_YEAST) -  DNA-directed RNA polymerases I and III subunit RPAC1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 335 a.a.

Struc: 335 a.a.

Protein chain

P47076  (RPC9_YEAST) -  DNA-directed RNA polymerase III subunit RPC9 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 161 a.a.

Struc: 119 a.a.

Protein chain

P20434  (RPAB1_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 215 a.a.

Struc: 215 a.a.

Protein chain

P20435  (RPAB2_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 155 a.a.

Struc: 83 a.a.

Protein chain

P35718  (RPC8_YEAST) -  DNA-directed RNA polymerase III subunit RPC8 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 212 a.a.

Struc: 191 a.a.

Protein chain

P20436  (RPAB3_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 146 a.a.

Struc: 140 a.a.

Protein chain

Q04307  (RPC10_YEAST) -  DNA-directed RNA polymerase III subunit RPC10 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 110 a.a.

Struc: 92 a.a.

Protein chain

P22139  (RPAB5_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC5 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 70 a.a.

Struc: 67 a.a.

Protein chain

P28000  (RPAC2_YEAST) -  DNA-directed RNA polymerases I and III subunit RPAC2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 142 a.a.

Struc: 101 a.a.

Protein chain

P40422  (RPAB4_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 70 a.a.

Struc: 45 a.a.

Protein chain

P36121  (RPC5_YEAST) -  DNA-directed RNA polymerase III subunit RPC5 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 282 a.a.

Struc: 165 a.a.

Protein chain

P25441  (RPC4_YEAST) -  DNA-directed RNA polymerase III subunit RPC4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 422 a.a.

Struc: 105 a.a.

Protein chain

P32349  (RPC3_YEAST) -  DNA-directed RNA polymerase III subunit RPC3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 654 a.a.

Struc: 528 a.a.

Protein chain

P32910  (RPC6_YEAST) -  DNA-directed RNA polymerase III subunit RPC6 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 317 a.a.

Struc: 98 a.a.

Protein chain

P17890  (RPC7_YEAST) -  DNA-directed RNA polymerase III subunit RPC7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 251 a.a.

Struc: 70 a.a.*

* PDB and UniProt seqs differ at 35 residue positions (black crosses)

Enzyme reactions

• Enzyme class: Chains A, B: E.C.2.7.7.6 - DNA-directed Rna polymerase.
• Reaction: RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

Added reference

DOI no: 10.1038/nature16143

Nature 528:231-236 (2015)

PubMed id: 26605533

Molecular structures of unbound and transcribing RNA polymerase III.

N.A.Hoffmann, A.J.Jakobi, M.Moreno-Morcillo, S.Glatt, J.Kosinski, W.J.Hagen, C.Sachse, C.W.Müller.

ABSTRACT

Transcription of genes encoding small structured RNAs such as transfer RNAs, spliceosomal U6 small nuclear RNA and ribosomal 5S RNA is carried out by RNA polymerase III (Pol III), the largest yet structurally least characterized eukaryotic RNA polymerase. Here we present the cryo-electron microscopy structures of the Saccharomyces cerevisiae Pol III elongating complex at 3.9 Å resolution and the apo Pol III enzyme in two different conformations at 4.6 and 4.7 Å resolution, respectively, which allow the building of a 17-subunit atomic model of Pol III. The reconstructions reveal the precise orientation of the C82-C34-C31 heterotrimer in close proximity to the stalk. The C53-C37 heterodimer positions residues involved in transcription termination close to the non-template DNA strand. In the apo Pol III structures, the stalk adopts different orientations coupled with closed and open conformations of the clamp. Our results provide novel insights into Pol III-specific transcription and the adaptation of Pol III towards its small transcriptional targets.