3QT1	Transferase, Transcription	date	Feb 22, 2011
title	Rna Polymerase II Variant Containing A Chimeric Rpb9-C11 Sub
authors	W.Ruan, E.Lehmann, M.Thomm, D.Kostrewa, P.Cramer
compound		source
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb1 Chain: A Synonym: Rpb1, Rna Polymerase II Subunit 1, Rna Polymerase B1, Dna-Directed Rna Polymerase III Largest Subunit, Rna Po II Subunit B220; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb2 Chain: B Synonym: Rpb2, Rna Polymerase II Subunit 2, B150, Dna-Direc Polymerase II 140 Kda Polypeptide; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb3 Chain: C Synonym: Rpb3, Rna Polymerase II Subunit 3, Rna Polymerase B3, B44.5, Dna-Directed Rna Polymerase II 45 Kda Polypeptid Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb4 Chain: D Synonym: Rpb4, Rna Polymerase II Subunit B4, B32, Dna-Direc Polymerase II 32 Kda Polypeptide; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: E Synonym: Rpb5, Rna Polymerases I, II, And III Subunit Abc1, Dna-Directed Rna Polymerases I, II, And III 27 Kda Polypept Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: F Synonym: Rpb6, Rna Polymerases I, II, And III Subunit Abc2, Dna-Directed Rna Polymerases I, II, And III 23 Kda Polypept Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb7 Chain: G Synonym: Rpb7, Rna Polymerase II Subunit B7, B16 Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: H Synonym: Rpb8, Rna Polymerases I, II, And III Subunit Abc3, Abc14.5, Dna-Directed Rna Polymerases I, II, And III 14.5 K Polypeptide; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb9, Dna- Rna Polymerase III Subunit Rpc10; Chain: I Fragment: Rpb9 (Unp Residues 1-86), C11 (Unp Residues 87-11 Synonym: Rpb9, Rna Polymerase II Subunit B9, B12.6, Dna-Dir Polymerase II 14.2 Kda Polypeptide, Dna-Directed Rna Polyme Subunit 9, C11; Ec: 2.7.7.6 Engineered: Yes Other_details: Chimeric Protein Consisting Of Rpb9 (N-Termi Domain, Residues 1-87) From Rna Polymerase II And C11 (C-Te Domain, Residuyes 85-110) From Rna Polymerase III;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast, Yeast Organism_taxid: 4932 Gene: Rpb9, Ygl070c Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b+
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: J Synonym: Rpb10, Rna Polymerases I, II, And III Subunit Abc5 Beta, Abc8, Dna-Directed Rna Polymerases I, II, And III 8.3 Polypeptide; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb11 Chain: K Synonym: Rpb11, Rna Polymerase II Subunit B11, B13.6, Dna-D Rna Polymerase II 13.6 Kda Polypeptide; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: L Synonym: Rpb12, Rna Polymerases I, II, And III Subunit Abc4 Alpha; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Yeast Organism_taxid: 4932
symmetry	Space Group: C 2 2 21	R_factor 0.235 R_Free 0.281
crystal cell	length a length b length c angle alpha angle beta angle gamma 222.380 393.380 281.430 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	4.30 Å
ligand	MG, ZN	enzyme	Transferase E.C.2.7.7.6 BRENDA
Gene Ontology	Chain Function Process Component A RNA-directed 5'-3' RNA polym... B RNA-directed 5'-3' RNA polym... C RNA-directed 5'-3' RNA polym... D RNA-directed 5'-3' RNA polym... E RNA-directed 5'-3' RNA polym... F RNA-directed 5'-3' RNA polym... G RNA-directed 5'-3' RNA polym... H RNA-directed 5'-3' RNA polym... I J RNA-directed 5'-3' RNA polym... DNA-directed RNA polymerase ... K RNA-directed 5'-3' RNA polym... L RNA-directed 5'-3' RNA polym...
Primary reference	Evolution of two modes of intrinsic RNA polymerase transcript cleavage., Ruan W, Lehmann E, Thomm M, Kostrewa D, Cramer P, J Biol Chem. 2011 May 27;286(21):18701-7. Epub 2011 Mar 23. PMID:21454497

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1340 Kb) [Save to disk] Biological Unit Coordinates (3qt1.pdb1.gz) 1326 Kb LPC: Ligand-Protein Contacts for 3QT1 CSU: Contacts of Structural Units for 3QT1 Structure Factors (736 Kb) Retrieve 3QT1 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3QT1 from S2C, [Save to disk] Re-refined 3qt1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3QT1 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 3QT1

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 3D motif for 3QT1, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3qt1_B] [3qt1_L] [3qt1_H] [3qt1_I] [3qt1_J] [3qt1] [3qt1_D] [3qt1_F] [3qt1_C] [3qt1_E] [3qt1_G] [3qt1_A] [3qt1_K] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3QT1: [RNA_pol_Rpb6] [RPOL4c] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [S1] [ZnF_C2C2 ] by SMART

Other resources with information on 3QT1

Community annotation for 3QT1 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---