1LE9 Transcription Dna date Apr 09, 2002
title Crystal Structure Of A Nf-Kb Heterodimer Bound To The Ighiv
authors B.Benjamin, D.B.Huang, F.E.Chen-Park, P.B.Sigler, G.Ghosh
compound source
Molecule: 5'-D(Tpgpgpgpapcptptptpcpcpt)-3'
Chain: C, G
Engineered: Yes
Other_details: Ighiv2-Kb Dna
Synthetic: Yes

Molecule: 5'-D(Apapgpgpapapapgptpcpcpc)-3'
Chain: D, H
Engineered: Yes
Other_details: Ighiv2-Kb Dna

Synthetic: Yes

Molecule: Nuclear Factor Nf-Kappa-B P65 Subunit
Chain: A, E
Fragment: P65 Rhr
Synonym: Nf-Kb P65
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Rela
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: T7 Promoter
Expression_system_plasmid: Pet29b

Molecule: Nuclear Factor Nf-Kappa-B P50 Subunit
Chain: B, F
Fragment: P50 Rhr
Synonym: Nf-Kb P50
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Nfkb1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: T7 Promoter
Expression_system_plasmid: Pet29b
symmetry Space Group: C 1 2 1
R_factor 0.249 R_Free 0.305
crystal
cell
length a length b length c angle alpha angle beta angle gamma
137.835 138.002 90.044 90.00 97.28 90.00
method X-Ray Diffractionresolution 3.00 Å
related structures by homologous chain: 1VKX
Gene
Ontology
ChainFunctionProcessComponent
A, E


F, B


Primary referenceThe x-ray crystal structure of the NF-kappa B p50.p65 heterodimer bound to the interferon beta -kappa B site., Berkowitz B, Huang DB, Chen-Park FE, Sigler PB, Ghosh G, J Biol Chem 2002 Jul 5;277(27):24694-700. Epub 2002 Apr 22. PMID:11970948
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (212 Kb) [Save to disk]
  • Biological Unit Coordinates (1le9.pdb1.gz) 105 Kb
  • Biological Unit Coordinates (1le9.pdb2.gz) 106 Kb
  • CSU: Contacts of Structural Units for 1LE9
  • Likely Quarternary Molecular Structure file(s) for 1LE9
  • Retrieve 1LE9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LE9 from S2C, [Save to disk]
  • View 1LE9 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 1LE9
  • 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 1LE9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1le9a2, region A:19-191 [Jmol] [rasmolscript] [script source]
        - Domain d1le9a1, region A:192-291 [Jmol] [rasmolscript] [script source]
        - Domain d1le9b1, region B:251-350 [Jmol] [rasmolscript] [script source]
        - Domain d1le9b2, region B:39-250 [Jmol] [rasmolscript] [script source]
        - Domain d1le9e2, region E:19-191 [Jmol] [rasmolscript] [script source]
        - Domain d1le9e1, region E:192-291 [Jmol] [rasmolscript] [script source]
        - Domain d1le9f1, region F:251-350 [Jmol] [rasmolscript] [script source]
        - Domain d1le9f2, region F:39-250 [Jmol] [rasmolscript] [script source]
  • Fold representative 1le9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1le9_G] [1le9_C] [1le9_B] [1le9_D] [1le9] [1le9_F] [1le9_A] [1le9_H] [1le9_E]
  • SWISS-PROT database: [P25799] [Q04207]
  • Domain organization of [NFKB1_MOUSE] [TF65_MOUSE] by SWISSPFAM
  • Domain found in 1LE9: [IPT ] by SMART
  • Other resources with information on 1LE9
  • Community annotation for 1LE9 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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