4ZCH Cytokine date Apr 16, 2015
title Single-Chain Human April-Baff-Baff Heterotrimer
authors A.Lammens, X.Jiang, K.Maskos, P.Schneider
compound source
Molecule: Tumor Necrosis Factor Ligand Superfamily Member 1 Necrosis Factor Ligand Superfamily Member 13b,Tumor Necrosi Ligand Superfamily Member 13b;
Chain: A, B
Synonym: A Proliferation-Inducing Ligand,April,Tnf- And Apo Leukocyte Expressed Ligand 2,Tall-2,Tnf-Related Death Ligan 1,B Lymphocyte Stimulator,Blys,B-Cell-Activating Factor,Baf Dendritic Cell-Derived Tnf-Like Molecule,Tnf- And Apol-Rela Leukocyte Expressed Ligand 1,Tall-1,B Lymphocyte Stimulator Cell-Activating Factor,Baff,Dendritic Cell-Derived Tnf-Like Tnf- And Apol-Related Leukocyte Expressed Ligand 1,Tall-1;
Engineered: Yes
Other_details: The Compound Is A Single Chain April-Baff-Ba Heterotrimer From The Construct Of His-Flag-Tev-Gs-Hapril ( T126a)-Ggggs-Hbaff(Aa140-285)-Ggggs-Hbaff(Aa140-285) With C Tags.
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tnfsf13, April, Tall2, Ztnf2, Unq383pro715, Tnfsf13b Blys, Tall1, Tnfsf20, Ztnf4, Unq401pro738;
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293
symmetry Space Group: C 2 2 21
R_factor 0.177 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.041 117.865 295.521 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.43 Å
ligand 144 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStoichiometry of heteromeric BAFF and APRIL cytokines dictate their receptor-binding and signalling properties., Schuepbach-Mallepell S, Das D, Willen L, Vigolo M, Tardivel A, Lebon L, Kowalczyk-Quintas C, Nys J, Smulski C, Zheng TS, Maskos K, Lammens A, Jiang X, Hess H, Tan SL, Schneider P, J Biol Chem. 2015 May 7. pii: jbc.M115.661405. PMID:25953898
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (295 Kb) [Save to disk]
  • Biological Unit Coordinates (4zch.pdb1.gz) 146 Kb
  • Biological Unit Coordinates (4zch.pdb2.gz) 144 Kb
  • LPC: Ligand-Protein Contacts for 4ZCH
  • CSU: Contacts of Structural Units for 4ZCH
  • Structure Factors (873 Kb)
  • Retrieve 4ZCH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4ZCH from S2C, [Save to disk]
  • Re-refined 4zch structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4ZCH 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 4ZCH
  • 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 4ZCH, from MSDmotif at EBI
  • Fold representative 4zch from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4zch_A] [4zch] [4zch_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4ZCH: [TNF ] by SMART
  • Other resources with information on 4ZCH
  • Community annotation for 4ZCH at PDBWiki (http://pdbwiki.org)

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