2IRF Gene Regulation Dna date May 30, 1999
title Crystal Structure Of An Irf-2dna Complex.
authors Y.Fujii, T.Shimizu, M.Kusumoto, Y.Kyogoku, T.Taniguchi, T.Hakoshi
compound source
Molecule: Dna (5'-D(Papapgptpgpapapapgp(5iu)Pgp
Chain: A, B, C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'-D(Tptpcpapcptptptpcpapcp(5iu)
Chain: D, E, F
Engineered: Yes

Synthetic: Yes

Molecule: Interferon Regulatory Factor 2
Chain: G, H, I, J, K, L
Fragment: Dna-Binding Domain
Synonym: Irf-2
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: T7
symmetry Space Group: P 65 2 2
R_factor 0.202 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
132.300 132.300 296.500 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand 5IU, K enzyme
related structures by homologous chain: 1IF1
Gene
Ontology
ChainFunctionProcessComponent
H, J, K, I, G, L


Primary referenceCrystal structure of an IRF-DNA complex reveals novel DNA recognition and cooperative binding to a tandem repeat of core sequences., Fujii Y, Shimizu T, Kusumoto M, Kyogoku Y, Taniguchi T, Hakoshima T, EMBO J 1999 Sep 15;18(18):5028-41. PMID:10487755
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (153 Kb) [Save to disk]
  • Biological Unit Coordinates (2irf.pdb1.gz) 51 Kb
  • Biological Unit Coordinates (2irf.pdb2.gz) 50 Kb
  • Biological Unit Coordinates (2irf.pdb3.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 2IRF
  • CSU: Contacts of Structural Units for 2IRF
  • Likely Quarternary Molecular Structure file(s) for 2IRF
  • Structure Factors (532 Kb)
  • Retrieve 2IRF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IRF from S2C, [Save to disk]
  • Re-refined 2irf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2IRF 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 2IRF
  • 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 2IRF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d2irfg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d2irfh_, region H [Jmol] [rasmolscript] [script source]
        - Domain d2irfi_, region I [Jmol] [rasmolscript] [script source]
        - Domain d2irfj_, region J [Jmol] [rasmolscript] [script source]
        - Domain d2irfk_, region K [Jmol] [rasmolscript] [script source]
        - Domain d2irfl_, region L [Jmol] [rasmolscript] [script source]
  • 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: [2irf_D] [2irf_F] [2irf_E] [2irf_I] [2irf_H] [2irf] [2irf_C] [2irf_A] [2irf_G] [2irf_K] [2irf_L] [2irf_B] [2irf_J]
  • SWISS-PROT database: [P23906]
  • Domain organization of [IRF2_MOUSE] by SWISSPFAM
  • Domain found in 2IRF: [IRF ] by SMART
  • Other resources with information on 2IRF
  • Community annotation for 2IRF 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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