5EDW Transferase Dna date Oct 22, 2015
title Ternary Structure Of Dpo4 Bound To G In The Template Base Pa Incoming Dttp
authors M.C.Koag, S.Lee
compound source
Molecule: Dna Polymerase Iv
Chain: A
Synonym: Pol Iv
Ec: 2.7.7.7
Engineered: Yes
 Organism_scientific: Sulfolobus Solfataricus (Strain Atcc 3 Dsm 1617 Jcm 11322 P2);
Organism_taxid: 273057
Strain: Atcc 35092 Dsm 1617 Jcm 11322 P2
Gene: Dbh, Dpo4, Sso2448
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'- D(Cptpapapcpgpgpgpaptpcpcptptpcpcpcpcpc)
Chain: T
Engineered: Yes
Synthetic: Yes
Organism_scientific: Sulfolobus Solfataricus P2
Organism_taxid: 273057

Molecule: Dna (5'-D(Gpgpgpgpgpapapgpgpaptptpc)
Chain: P
Engineered: Yes
Synthetic: Yes
Organism_scientific: Sulfolobus Solfataricus P2
Organism_taxid: 273057
symmetry Space Group: P 21 21 2
R_factor 0.220 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.516 101.994 52.864 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.62 Å
ligand CA, TTP enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (5edw.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 5EDW
  • CSU: Contacts of Structural Units for 5EDW
  • Structure Factors (161 Kb)
  • Retrieve 5EDW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EDW from S2C, [Save to disk]
  • Re-refined 5edw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5EDW 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 5EDW
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5edw] [5edw_A] [5edw_T] [5edw_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5EDW
  • Community annotation for 5EDW at PDBWiki (http://pdbwiki.org)

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