5LZ6 Antiviral Protein date Sep 29, 2016
title Crystal Structure Of Human Acbd3 Gold Domain In Complex With Protein Of Aichivirus B
authors M.Klima, E.Boura
compound source
Molecule: Golgi Resident Protein Gcp60
Chain: A
Synonym: Acyl-Coa-Binding Domain-Containing Protein 3,Golgi Associated Protein 1,Gocap1,Golgi Phosphoprotein 1,Golph1,P Pka-Associated Protein 7,Peripheral Benzodiazepine Receptor Associated Protein Pap7;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Acbd3, Gcp60, Gocap1, Golph1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693

Molecule: 3a
Chain: B
Engineered: Yes

Organism_scientific: Aichivirus B
Organism_taxid: 194965
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
symmetry Space Group: P 31 2 1
R_factor 0.215 R_Free 0.260
length a length b length c angle alpha angle beta angle gamma
55.630 55.630 144.270 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
ligand BGC enzyme
Primary referenceKobuviral Non-structural 3A Proteins Act as Molecular Harnesses to Hijack the Host ACBD3 Protein., Klima M, Chalupska D, Rozycki B, Humpolickova J, Rezabkova L, Silhan J, Baumlova A, Dubankova A, Boura E, Structure. 2017 Feb 7;25(2):219-230. doi: 10.1016/j.str.2016.11.021. Epub 2017, Jan 5. PMID:28065508
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (31 Kb) [Save to disk]
  • Biological Unit Coordinates (5lz6.pdb1.gz) 26 Kb
  • LPC: Ligand-Protein Contacts for 5LZ6
  • CSU: Contacts of Structural Units for 5LZ6
  • Structure Factors (78 Kb)
  • Retrieve 5LZ6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LZ6 from S2C, [Save to disk]
  • Re-refined 5lz6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5LZ6 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 5LZ6
  • 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
  • Fold representative 5lz6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5lz6_B] [5lz6_A] [5lz6]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5LZ6
  • Community annotation for 5LZ6 at PDBWiki (http://pdbwiki.org)

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