6LYE Dna Binding Protein Inhibitor date Feb 14, 2020
title Crystal Structure Of Mimivirus Ung Y322f In Complex With Ugi
authors D.Pathak, E.Kwon, D.Y.Kim
compound source
Molecule: Probable Uracil-Dna Glycosylase
Chain: A
Synonym: Udg
Ec: 3.2.2.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Acanthamoeba Polyphaga Mimivirus
Organism_common: Apmv
Organism_taxid: 212035
Gene: Ung, Mimi_l249
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Uracil-Dna Glycosylase Inhibitor
Chain: I
Engineered: Yes

Organism_scientific: Bacillus Phage Pbs2
Organism_taxid: 10684
Gene: Ugi
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: P 61
R_factor 0.173 R_Free 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.230 104.230 83.120 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
ligand
enzyme Hydrolase E.C.3.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
I


Primary referenceSelective interactions between mimivirus uracil-DNA glycosylase and inhibitory proteins determined by a single amino acid., Pathak D, Kwon E, Young Kim D, J Struct Biol. 2020 Jun 19:107552. doi: 10.1016/j.jsb.2020.107552. PMID:32569642
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (6lye.pdb1.gz) 58 Kb
  • CSU: Contacts of Structural Units for 6LYE
  • Structure Factors (236 Kb)
  • Retrieve 6LYE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6LYE from S2C, [Save to disk]
  • View 6LYE 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 6LYE
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6lye_I] [6lye_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6LYE
  • Community annotation for 6LYE at PDBWiki (http://pdbwiki.org)

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