4IDT Transferase Transferase Inhibitor date Dec 13, 2012
title Crystal Structure Of Nik With 11-Bromo-5,6,7,8-Tetrahydropyr 5':3,4]Cyclohepta[1,2-B]Indol-2-Amine (T28)
authors J.Liu, A.Sudom, Z.Wang
compound source
Molecule: Mitogen-Activated Protein Kinase Kinase Kinase 14
Chain: A, B
Fragment: Unp Residues 330-680
Synonym: Nf-Kappa-Beta-Inducing Kinase, Hsnik, Serinethreo Protein Kinase Nik;
Ec: 2.7.11.25
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Map3k14, Nik
symmetry Space Group: P 41
R_factor 0.191 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.530 84.530 117.947 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand T28 enzyme Transferase E.C.2.7.11.25 BRENDA
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] (217 Kb) [Save to disk]
  • Biological Unit Coordinates (4idt.pdb1.gz) 212 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
  • 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 4IDT, from MSDmotif at EBI
  • Fold representative 4idt from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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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