1Y14 Transferase date Nov 17, 2004
title Crystal Structure Of Yeast Subcomplex Of Rpb4 And Rpb7
authors K.J.Armache, S.Mitterweger, A.Meinhart, P.Cramer
compound source
Molecule: Dna-Directed Rna Polymerase II 32 Kda Polypeptide
Chain: A, C
Fragment: Residues 35-221
Synonym: B32, Rpb4
Ec: 2.7.7.6
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna-Directed Rna Polymerase II 19 Kda Polypeptide
Chain: B, D
Synonym: B16, Rpb7
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.228 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.646 114.810 80.479 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand
enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B
  • RNA-directed 5'-3' RNA polym...


  • Primary referenceStructures of complete RNA polymerase II and its subcomplex, Rpb4/7., Armache KJ, Mitterweger S, Meinhart A, Cramer P, J Biol Chem 2005 Feb 25;280(8):7131-4. Epub 2004 Dec 9. PMID:15591044
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (102 Kb) [Save to disk]
  • Biological Unit Coordinates (1y14.pdb1.gz) 98 Kb
  • Biological Unit Coordinates (1y14.pdb2.gz) 49 Kb
  • Biological Unit Coordinates (1y14.pdb3.gz) 51 Kb
  • CSU: Contacts of Structural Units for 1Y14
  • Likely Quarternary Molecular Structure file(s) for 1Y14
  • Structure Factors (642 Kb)
  • Retrieve 1Y14 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y14 from S2C, [Save to disk]
  • Re-refined 1y14 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y14 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1Y14
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1Y14, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1y14a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1y14b2, region B:1-80 [Jmol] [rasmolscript] [script source]
        - Domain d1y14b1, region B:81-171 [Jmol] [rasmolscript] [script source]
        - Domain d1y14c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1y14d2, region D:1-80 [Jmol] [rasmolscript] [script source]
        - Domain d1y14d1, region D:81-171 [Jmol] [rasmolscript] [script source]
  • Fold representative 1y14 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y14] [1y14_B] [1y14_D] [1y14_C] [1y14_A]
  • SWISS-PROT database: [P20433] [P34087]
  • Domain organization of [RPB4_YEAST] [RPB7_YEAST] by SWISSPFAM
  • Domains found in 1Y14: [RPOL4c] [S1 ] by SMART
  • Other resources with information on 1Y14
  • Community annotation for 1Y14 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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