5TJ4 Ligand Binding Protein date Oct 03, 2016
title Gasdermin-B C-Terminal Domain Containing The Polymorphism Re Gly299:Pro306 Fused To Maltose Binding Protein
authors L.K.Chao, O.Herzberg
compound source
Molecule: Sugar Abc Transporter Substrate-Binding Protein,G Fusion Protein;
Chain: A, B, C, D, E, F, G, H, I, J
Synonym: Gasdermin-Like Protein
Engineered: Yes
Organism_scientific: Escherichia Coli, Homo Sapiens
Organism_common: Human
Organism_taxid: 562, 9606
Gene: Male, Oo96_18925, Gsdmb, Gsdml, Pp4052, Pro2521
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmalx(E)
symmetry Space Group: P 1 21 1
R_factor 0.213 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.599 274.569 174.019 90.00 96.09 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand MAL, NA enzyme
Gene OO96
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, E, B, H, C, D, I, G


Primary referenceGene polymorphism linked to increased asthma and IBD risk alters gasdermin-B structure, a sulfatide and phosphoinositide binding protein., Chao KL, Kulakova L, Herzberg O, Proc Natl Acad Sci U S A. 2017 Feb 14;114(7):E1128-E1137. doi:, 10.1073/pnas.1616783114. Epub 2017 Feb 1. PMID:28154144
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (823 Kb) [Save to disk]
  • Biological Unit Coordinates (5tj4.pdb1.gz) 93 Kb
  • Biological Unit Coordinates (5tj4.pdb2.gz) 93 Kb
  • Biological Unit Coordinates (5tj4.pdb3.gz) 92 Kb
  • Biological Unit Coordinates (5tj4.pdb4.gz) 91 Kb
  • Biological Unit Coordinates (5tj4.pdb5.gz) 93 Kb
  • Biological Unit Coordinates (5tj4.pdb6.gz) 91 Kb
  • Biological Unit Coordinates (5tj4.pdb7.gz) 90 Kb
  • Biological Unit Coordinates (5tj4.pdb8.gz) 88 Kb
  • Biological Unit Coordinates (5tj4.pdb9.gz) 87 Kb
  • LPC: Ligand-Protein Contacts for 5TJ4
  • CSU: Contacts of Structural Units for 5TJ4
  • Structure Factors (2193 Kb)
  • Retrieve 5TJ4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5TJ4 from S2C, [Save to disk]
  • Re-refined 5tj4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5TJ4 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 5TJ4
  • 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 5tj4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5tj4_C] [5tj4] [5tj4_J] [5tj4_F] [5tj4_D] [5tj4_I] [5tj4_B] [5tj4_A] [5tj4_E] [5tj4_G] [5tj4_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5TJ4
  • Community annotation for 5TJ4 at PDBWiki (http://pdbwiki.org)

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