2PPB	Transferase Dna Rna	date	Apr 28, 2007
title	Crystal Structure Of The T. Thermophilus Rnap Polymerase Elo Complex With The Ntp Substrate Analog And Antibiotic Strept
authors	D.G.Vassylyev, M.N.Vassylyeva, I.Artsimovitch, R.Landick
compound		source
Molecule: Dna (5'- D(Pcpcpcptpgptpcptpgpgpcpgptptpcpgpcpgpc G)-3'); Chain: G, X Engineered: Yes Other_details: Dna Template Strand		Synthetic: Yes
Molecule: Rna (5'- R(Pgpapgpupcpupgpcpgpgpcpgpcpgpcpg)-3'); Chain: H, Y Engineered: Yes Other_details: Rna Transcript		Synthetic: Yes
Molecule: Dna (5'-D(Apapcpgpcpcpapgpapcpapgpgp Chain: I, Z Engineered: Yes Other_details: Dna Non-Template Strand		Synthetic: Yes
Molecule: Dna-Directed Rna Polymerase Alpha Chain Chain: A, B, K, L Synonym: Rnap Alpha Subunit, Transcriptase Alpha Chain, Rna Polymerase Subunit Alpha; Ec: 2.7.7.6		Organism_scientific: Thermus Thermophilus Organism_taxid: 300852 Strain: Hb8
Molecule: Dna-Directed Rna Polymerase Beta Chain Chain: C, M Synonym: Rnap Beta Subunit, Transcriptase Beta Chain, Rna P Subunit Beta; Ec: 2.7.7.6		Organism_scientific: Thermus Thermophilus Organism_taxid: 300852 Strain: Hb8
Molecule: Dna-Directed Rna Polymerase Beta' Chain Chain: D, N Synonym: Rnap Beta' Subunit, Transcriptase Beta' Chain, Rna Polymerase Beta' Subunit; Ec: 2.7.7.6		Organism_scientific: Thermus Thermophilus Organism_taxid: 300852 Strain: Hb8
Molecule: Dna-Directed Rna Polymerase Omega Chain Chain: E, O Synonym: Rnap Omega Subunit, Transcriptase Omega Chain, Rna Polymerase Omega Subunit; Ec: 2.7.7.6		Organism_scientific: Thermus Thermophilus Organism_taxid: 300852 Strain: Hb8
symmetry	Space Group: P 41	R_factor 0.234 R_Free 0.266
crystal cell	length a length b length c angle alpha angle beta angle gamma 155.379 155.379 496.992 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	APC, MG, STD, ZN	enzyme	Transferase E.C.2.7.7.6 BRENDA
Gene Ontology	Chain Function Process Component A, K, B, L M, C N, D O, E
Primary reference	Structural basis for substrate loading in bacterial RNA polymerase., Vassylyev DG, Vassylyeva MN, Zhang J, Palangat M, Artsimovitch I, Landick R, Nature. 2007 Jun 20;. PMID:17581591

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1038 Kb) [Save to disk] Biological Unit Coordinates (2ppb.pdb1.gz) 522 Kb Biological Unit Coordinates (2ppb.pdb2.gz) 519 Kb LPC: Ligand-Protein Contacts for 2PPB CSU: Contacts of Structural Units for 2PPB Likely Quarternary Molecular Structure file(s) for 2PPB Structure Factors (2111 Kb) Retrieve 2PPB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2PPB from S2C, [Save to disk] Re-refined 2ppb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2PPB 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 2PPB

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 2PPB, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2ppb_L] [2ppb_Y] [2ppb_N] [2ppb_Z] [2ppb_O] [2ppb_I] [2ppb_K] [2ppb_D] [2ppb_A] [2ppb_E] [2ppb_X] [2ppb_H] [2ppb_B] [2ppb_M] [2ppb_G] [2ppb_C] [2ppb] SWISS-PROT database: [Q9Z9H6] [Q8RQE9] [Q8RQE8] [Q8RQE7] Domain organization of [RPOA_THETH] [RPOB_THET8] [RPOC_THET8] [RPOZ_THET8] by SWISSPFAM Domains found in 2PPB: [HhH1] [RNA_pol_Rpb6] [RPOLA_N] [RPOLD ] by SMART

Other resources with information on 2PPB

Community annotation for 2PPB 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

---