Crystal Structure of Yeast RNA Polymerase II Complexed with the Inhibitor Alpha Amanitin DOI:10.2210/pdb1k83/pdb

1K83   Display Files  close FASTA Sequence PDB File PDB File (Header) mmCIF File mmCIF File (Header) PDBML/XML File PDBML/XML File (Header)   Download Files  close FASTA Sequence PDB File (Text) PDB File (gz) mmCIF File mmCIF File (gz) PDBML/XML File PDBML/XML File (gz) Structure Factor (Text) Structure Factor (gz) Biological Assembly (gz) (A)   Share this Page  close Facebook Twitter LinkedIn Email Link this Page

Primary Citation       Related Citations in PDB Entry (REMARK 1) Hide     Molecular Description Hide Classification: Transcription/toxin Structure Weight: 471145.09 Molecule: DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT Polymer: 1 Type: protein Length: 1733 Chains: A EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPO21 RPB1 RPB220 SUA8 YDL140C D2150 UniProtKB:   Protein Feature View | Search PDB | P04050     Molecule: DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE Polymer: 2 Type: protein Length: 1224 Chains: B EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB2 RPB150 RPO22 YOR151C UniProtKB:   Protein Feature View | Search PDB | P08518     Molecule: DNA-DIRECTED RNA POLYMERASE II 45KD POLYPEPTIDE Polymer: 3 Type: protein Length: 318 Chains: C EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB3 YIL021W UniProtKB:   Protein Feature View | Search PDB | P16370     Molecule: DNA-DIRECTED RNA POLYMERASE II 27KD POLYPEPTIDE Polymer: 4 Type: protein Length: 215 Chains: E EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB5 RPA7 RPC9 YBR154C YBR1204 UniProtKB:   Protein Feature View | Search PDB | P20434     Molecule: DNA-DIRECTED RNA POLYMERASE II 23KD POLYPEPTIDE Polymer: 5 Type: protein Length: 155 Chains: F EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPO26 RPB6 YPR187W P9677.8 UniProtKB:   Protein Feature View | Search PDB | P20435     Molecule: DNA-DIRECTED RNA POLYMERASE II 14.5KD POLYPEPTIDE Polymer: 6 Type: protein Length: 146 Chains: H EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB8 YOR224C YOR50-14 UniProtKB:   Protein Feature View | Search PDB | P20436     Molecule: DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE Polymer: 7 Type: protein Length: 122 Chains: I EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB9 YGL070C UniProtKB:   Protein Feature View | Search PDB | P27999     Molecule: DNA-DIRECTED RNA POLYMERASE II 8.3KD POLYPEPTIDE Polymer: 8 Type: protein Length: 70 Chains: J EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB10 YOR210W UniProtKB:   Protein Feature View | Search PDB | P22139     Molecule: DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE Polymer: 9 Type: protein Length: 120 Chains: K EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPB11 YOL005C UniProtKB:   Protein Feature View | Search PDB | P38902     Molecule: DNA-DIRECTED RNA POLYMERASE II 7.7KD POLYPEPTIDE Polymer: 10 Type: protein Length: 70 Chains: L EC#: 2.7.7.6    Organism Saccharomyces cerevisiae Gene Names RPC10 RPB12 YHR143W-A YHR143BW UniProtKB:   Protein Feature View | Search PDB | P40422     Molecule: ALPHA AMANITIN Polymer: 11 Type: protein Length: 8 Chains: M Organism Amanita phalloides UniProtKB:   Protein Feature View | Search PDB | P85421         Source Hide Polymer: 1 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 2 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 3 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 4 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 5 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 6 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 7 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 8 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 9 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 10 Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast   Polymer: 11 Scientific Name: Amanita phalloides   Taxonomy         Related PDB Entries Hide Identifier Details 1I50  YEAST RNA POLYMERASE II AT 2.8 ANGSTROMS  2VUM  CRYSTAL STRUCTURE OF A COMPLETE RNA POLYMERASE II ELONGATION COMPLEXED WITH THE INHIBITOR ALPHA-AMANITIN  3CQZ  CRYSTAL STRUCTURE OF 10 SUBUNIT RNA POLYMERASE II COMPLEXED WITH THE INHIBITOR ALPHA-AMANITIN      Biologically Interesting Molecules (BIRD) Hide Identifier Image Name Type Class Chain ID   PRD_000201 Search  Alpha-Amanitin Cyclic peptide Toxin M   Ligand Explorer     Ligand Chemical Component Hide Identifier Formula Name Interactions MN Search  Download  Mn MANGANESE (II) ION   Ligand Explorer ZN Search  Download  Zn ZINC ION   Ligand Explorer     Modified Residues Hide Identifier Formula Parent Type ILX Search  C6 H13 N O4 ILE lPeptideLinking TRX Search  C11 H12 N2 O3 TRP lPeptideLinking CSX Search  C3 H7 N O3 S CYS lPeptideLinking HYP Search  C5 H9 N O3 PRO lPeptideLinking     External Domain Annotations Hide SCOP Classification v1.75: 13 Domains - data from SCOP   CATH Classification v3.4.0: 13 Domains - data from CATH   Pfam Classification: 26 Domains - data from Pfam   GO Terms: 151 Terms - data from GO      Structural Biology Knowledgebase Data Hide     Data in orange boxes are gathered from external resources (when available). Reset Layout

Biological Assembly            View in 3D More Images... Biological assembly 1 assigned by authors Downloadable viewers: Simple Viewer Protein Workshop Ligand Explorer Kiosk Viewer Other Viewers  KiNG WebMol QuickPDB FirstGlance         MyPDB Personal Annotations Hide     Deposition Summary Hide Authors:   Bushnell, D.A.,  Cramer, P.,  Kornberg, R.D. Deposition:   2001-10-22 Release:   2002-02-13 Last Modified (REVDAT):   2011-07-27     Revision History    Hide Mouse over text for details 2012-12-12 Other 2011-07-27 Atom nomenclature 2011-07-27 Binding sites and description 2011-07-27 Non-polymer description 2011-07-27 Function and keywords 2011-07-27 Linkage 2011-07-27 Sequence database correspondence 2011-07-27 Polymer description 2011-07-13 Version format compliance     Experimental Details Hide Method:   X-RAY DIFFRACTION Exp. Data:   Structure Factors EDS   Resolution[Å]:   2.80 R-Value: 0.229 (obs.) R-Free: 0.280 Space Group: I 2 2 2 Unit Cell:   Length [Å] Angles [°] a = 122.51 α = 90.00  b = 222.48 β = 90.00  c = 374.23 γ = 90.00      Molecule of the Month Hide RNA Polymerase