4IDT Crystal Structure of NIK with 11-bromo-5,6,7,8-tetrahydropyrimido[4',5':3,4]cyclohepta[1,2-b]indol-2-amine (T28) date 2012-12-13
authors Liu, J., Sudom, A., Wang, Z.
compound source
symmetry
R_factor
R_Free 0.2276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.40
ligand T28 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceInhibiting NF-kappaB-inducing kinase (NIK): discovery, structure-based design, synthesis, structure-activity relationship, and co-crystal structures., Li K, McGee LR, Fisher B, Sudom A, Liu J, Rubenstein SM, Anwer MK, Cushing TD, Shin Y, Ayres M, Lee F, Eksterowicz J, Faulder P, Waszkowycz B, Plotnikova O, Farrelly E, Xiao SH, Chen G, Wang Z, Bioorg Med Chem Lett. 2013 Mar 1;23(5):1238-44. doi: 10.1016/j.bmcl.2013.01.012. , Epub 2013 Jan 11. PMID:23374866
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (213 Kb) [Save to disk]
  • Biological Unit Coordinates (4idt.pdb1.gz) 207 Kb
  • LPC: Ligand-Protein Contacts for 4IDT
  • CSU: Contacts of Structural Units for 4IDT
  • Structure Factors (1693 Kb)
  • Retrieve 4IDT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4IDT from S2C, [Save to disk]
  • Re-refined 4idt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4IDT 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 4IDT
  • 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
  • 3D motif for 4IDT, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4idt_B] [4idt_A] [4idt]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4IDT: [STYKc ] by SMART
    • Other resources with information on 4IDT
  • Community annotation for 4IDT at PDBWiki (http://pdbwiki.org)

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