1T2K Transcription Dna date Apr 21, 2004
title Structure Of The Dna Binding Domains Of Irf3, Atf-2 And Jun Dna
authors D.Panne, T.Maniatis, S.C.Harrison
compound source
Molecule: 31-Mer
Chain: E
Engineered: Yes
Other_details: Interferon-B Enhancer
 Synthetic: Yes

Molecule: 31-Mer
Chain: F
Engineered: Yes
Other_details: Interferon-B Enhancer
Synthetic: Yes

Molecule: Interferon Regulatory Factor 3
Chain: A, B
Fragment: N-Terminal Dna Binding Domain
Synonym: Irf-3
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Irf3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptxb3

Molecule: Transcription Factor Ap-1
Chain: C
Fragment: Bzip Domain
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Jun
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a

Molecule: Cyclic-Amp-Dependent Transcription Factor Atf-2
Chain: D
Fragment: Bzip Domain
Synonym: Activating Transcription Factor 2, Camp Response E Binding Protein Cre- Bp1, Hb16;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Atf2, Creb2, Crebp1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a
symmetry Space Group: C 1 2 1
R_factor 0.257 R_Free 0.296
crystal
cell
length a length b length c angle alpha angle beta angle gamma
186.380 65.210 83.850 90.00 93.44 90.00
method X-Ray Diffractionresolution 3.00 Å
note 1T2K (Molecule of the Month:pdb122)is a representative structure
related structures by homologous chain: 1A02, 1JUN
Gene
Ontology
ChainFunctionProcessComponent
A, B


C


D


Primary referenceCrystal structure of ATF-2/c-Jun and IRF-3 bound to the interferon-beta enhancer., Panne D, Maniatis T, Harrison SC, EMBO J 2004 Nov 10;23(22):4384-93. Epub 2004 Oct 28. PMID:15510218
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (85 Kb) [Save to disk]
  • Biological Unit Coordinates (1t2k.pdb1.gz) 80 Kb
  • CSU: Contacts of Structural Units for 1T2K
  • Likely Quarternary Molecular Structure file(s) for 1T2K
  • Structure Factors (165 Kb)
  • Retrieve 1T2K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1T2K from S2C, [Save to disk]
  • Re-refined 1t2k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1T2K 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 1T2K
  • 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 1T2K, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1t2ka_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1t2kb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1t2kc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1t2kd_, region D [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1t2k_B] [1t2k_D] [1t2k_A] [1t2k_E] [1t2k] [1t2k_C] [1t2k_F]
  • SWISS-PROT database: [P15336] [Q14653] [P05412]
  • Domain organization of [ATF2_HUMAN] [IRF3_HUMAN] [JUN_HUMAN] by SWISSPFAM
  • Domains found in 1T2K: [BRLZ] [IRF ] by SMART
    • Other resources with information on 1T2K
  • Community annotation for 1T2K 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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