3DO7 Transcription Dna date Jul 03, 2008
title X-Ray Structure Of A Nf-Kb P52relbdna Complex
authors A.Fusco, D.B.Huang, D.Miller, D.Vu, G.Ghosh
compound source
Molecule: Avian Reticuloendotheliosis Viral (V-Rel) Oncogene Related B;
Chain: A
Fragment: Rhr (Unp Residues 88-383)
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Relb
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: T7 Promoter
Expression_system_plasmid: Pet15b

Molecule: Nuclear Factor Nf-Kappa-B P100 Subunit
Chain: B
Fragment: Rhr (Unp Residues 37-329)
Synonym: Dna-Binding Factor Kbf2, H2tf1, Lymphocyte Translocation Chromosome 10, Oncogene Lyt-10, Lyt10, Nuclear Factor Nf-Kappa-B P52 Subunit;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nfkb2, Lyt10
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: T7 Promoter
Expression_system_plasmid: Pet11a

Molecule: 5'- D(Dcpdgpdgpdgpdapdapdtpdtpdcpdcpdc)-3';
Chain: C, D, E
Fragment: Kappa B Site
Engineered: Yes
Other_details: Kappab Dna

Synthetic: Yes
symmetry Space Group: C 2 2 21
R_factor 0.230 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.640 124.130 189.590 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.05 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (115 Kb) [Save to disk]
  • Biological Unit Coordinates (3do7.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (3do7.pdb2.gz) 10 Kb
  • CSU: Contacts of Structural Units for 3DO7
  • Likely Quarternary Molecular Structure file(s) for 3DO7
  • Structure Factors (95 Kb)
  • Retrieve 3DO7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DO7 from S2C, [Save to disk]
  • Re-refined 3do7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DO7 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 3DO7
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3DO7, from MSDmotif at EBI
  • Fold representative 3do7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3do7_C] [3do7_A] [3do7_B] [3do7_E] [3do7_D] [3do7]
  • SWISS-PROT database: [Q00653] [Q04863]
  • Domain organization of [NFKB2_HUMAN] [RELB_MOUSE] by SWISSPFAM
  • Domain found in 3DO7: [IPT ] by SMART
  • Other resources with information on 3DO7
  • Community annotation for 3DO7 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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