3RH4 Transferase Dna date Apr 11, 2011
title Dna Polymerase Beta With A Dideoxy-Terminated Primer With An Ribonucleotide (Rctp)
authors N.A.Cavanaugh, W.A.Beard, V.K.Batra, L.Perera, L.G.Pedersen, S.H.
compound source
Molecule: 5'-D(Cpcpgpapcpgpcpcpgpcpaptpcpapg
Chain: T
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Gpcptpgpaptpgpcpgp(Ddg))-3'
Chain: P
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Pgptpcpgpg)-3'
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7, 4.2.99.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tap56
Expression_system_vector_type: Pwl11
symmetry Space Group: P 1 21 1
R_factor 0.175 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.170 79.790 55.000 90.00 107.95 90.00
method X-Ray Diffractionresolution 1.92 Å
ligand CL, CTP, DDG, MN, NA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceMolecular insights into DNA polymerase deterrents for Ribonucleotide insertion., Cavanaugh NA, Beard WA, Batra VK, Perera L, Pedersen LG, Wilson SH, J Biol Chem. 2011 Jul 6. PMID:21733843
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (3rh4.pdb1.gz) 80 Kb
  • LPC: Ligand-Protein Contacts for 3RH4
  • CSU: Contacts of Structural Units for 3RH4
  • Structure Factors (434 Kb)
  • Retrieve 3RH4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RH4 from S2C, [Save to disk]
  • Re-refined 3rh4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RH4 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 3RH4
  • 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 3RH4, from MSDmotif at EBI
  • Fold representative 3rh4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rh4_D] [3rh4_P] [3rh4_T] [3rh4_A] [3rh4]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3RH4: [HhH1] [POLXc ] by SMART
  • Other resources with information on 3RH4
  • Community annotation for 3RH4 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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