3BRT Transferase Transcription date Dec 21, 2007
title Nemoikk Association Domain Structure
authors L.F.Silvian
compound source
Molecule: Inhibitor Of Nuclear Factor Kappa-B Kinase Subunit Beta,Inhibitor Of Nuclear Factor Kappa-B Kinase Subunit Alpha;
Chain: A, C
Fragment: Fusion Protein Consists Of Unp Residues 701-730 Of Ikk-B And Nemo-Binding Domain Of Ikk-A;
Synonym: I-Kappa-B-Kinase Beta, Ikbkb, Ikk-Beta, Ikk-B, I- Kappa-B Kinase 2, Ikk2, Nuclear Factor Nf-Kappa-B Inhibitor Kinase Beta, Nfkbikb,I Kappa-B Kinase Alpha, Ikbka, Ikk-Alpha, Ikk-A, Ikappab Kinase, I-Kappa-B Kinase 1, Ikk1, Conserved Helix-Loop-Helix, Ubiquitous Kinase, Nuclear Factor Nf-Kappa-B, Inhibitor Kinase Alpha, Nfkbika,;
Ec: 2.7.11.10
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ikbkb, Ikkb
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a

Molecule: Nf-Kappa-B Essential Modulator
Chain: B, D
Synonym: Nemo, Nf-Kappa-B Essential Modifier, Inhibitor Of Nuclear Factor Kappa-B Kinase Subunit Gamma, Ikb Kinase Subunit Gamma, I-Kappa-B Kinase Gamma, Ikk-Gamma, Ikkg, Ikb Kinase-Associated Protein 1, Ikkap1, Fip-3;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ikbkg, Fip3, Nemo
symmetry Space Group: P 21 21 21
R_factor 0.238 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.869 105.556 56.707 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand
enzyme Transferase E.C.2.7.11.10 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceStructure of a NEMO/IKK-Associating Domain Reveals Architecture of the Interaction Site., Rushe M, Silvian L, Bixler S, Chen LL, Cheung A, Bowes S, Cuervo H, Berkowitz S, Zheng T, Guckian K, Pellegrini M, Lugovskoy A, Structure. 2008 May;16(5):798-808. PMID:18462684
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk]
  • Biological Unit Coordinates (3brt.pdb1.gz) 34 Kb
  • Biological Unit Coordinates (3brt.pdb2.gz) 17 Kb
  • Biological Unit Coordinates (3brt.pdb3.gz) 18 Kb
  • Biological Unit Coordinates (3brt.pdb4.gz) 17 Kb
  • Biological Unit Coordinates (3brt.pdb5.gz) 18 Kb
  • CSU: Contacts of Structural Units for 3BRT
  • Likely Quarternary Molecular Structure file(s) for 3BRT
  • Structure Factors (178 Kb)
  • Retrieve 3BRT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BRT from S2C, [Save to disk]
  • Re-refined 3brt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BRT 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 3BRT
  • 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 3BRT, from MSDmotif at EBI
  • Fold representative 3brt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3brt_C] [3brt_B] [3brt] [3brt_A] [3brt_D]
  • SWISS-PROT database: [O15111] [O14920] [Q9Y6K9]
  • Domain organization of [IKKA_HUMAN] [IKKB_HUMAN] [NEMO_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 3BRT with the sequences similar proteins can be viewed for 3BRT's classification [IKKA_HUMAN] [IKKB_HUMAN] [NEMO_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [IKKA_HUMAN] [IKKB_HUMAN] [NEMO_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3BRT
  • Community annotation for 3BRT at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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