4FZY Hydrolase Dna date Jul 08, 2012
title Exonuclease X In Complex With 12bp Blunt-Ended Dsdna
authors T.Wang, H.Sun, F.Cheng, L.Bi, T.Jiang
compound source
Molecule: Dna (5'-D(Tpgptpapgpaptptpcpgpapg)-3'
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Exodeoxyribonuclease 10
Chain: A, B
Fragment: Unp Residues 1-167
Synonym: Exodeoxyribonuclease X, Exo X, Exonuclease X
Ec: 3.1.11.-
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 83333
Strain: K12
Gene: Exox
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.219 R_Free 0.241
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.282 78.887 146.668 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand NA enzyme Hydrolase E.C.3.1.11 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceRecognition and processing of double-stranded DNA by ExoX, a distributive 3'-5' exonuclease., Wang T, Sun HL, Cheng F, Zhang XE, Bi L, Jiang T, Nucleic Acids Res. 2013 Jun 14. PMID:23771145
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (4fzy.pdb1.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 4FZY
  • CSU: Contacts of Structural Units for 4FZY
  • Structure Factors (336 Kb)
  • Retrieve 4FZY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FZY from S2C, [Save to disk]
  • Re-refined 4fzy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4FZY 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 4FZY
  • 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 4FZY, from MSDmotif at EBI
  • Fold representative 4fzy from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fzy] [4fzy_C] [4fzy_D] [4fzy_A] [4fzy_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4FZY: [EXOIII ] by SMART
  • Other resources with information on 4FZY
  • Community annotation for 4FZY at PDBWiki (http://pdbwiki.org)

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