3QRF Dna Binding Protein Dna date Feb 17, 2011
title Structure Of A Domain-Swapped Foxp3 Dimer
authors H.S.Bandukwala, Y Wu, M Feurer, Y Chen, B Barbosa, S Ghosh, J.C.St C.Benoist, D.Mathis, A.Rao, L.Chen
compound source
Molecule: Nuclear Factor Of Activated T-Cells, Cytoplasmic
Chain: N, M
Fragment: Human Nfat1 Dna Binding Domain
Synonym: Nf-Atc2, Nfatc2, Nfat Pre-Existing Subunit, Nf-Atp Transcription Factor Nfat1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nfatc2, Nfat1, Nfatp
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Forkhead Box Protein P3
Chain: F, G, H, I
Fragment: Human Foxp3 Dna Binding Domain
Synonym: Scurfin
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Foxp3, Ipex, Jm2
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Human Harre2 Dna (Plus Strand)
Chain: C, A
Fragment: Human Il-2 Promoter Arre2 Site (Plus Strand)
Engineered: Yes

Synthetic: Yes
Other_details: The Core Harre2 Site Occurs Naturally In Hum

Molecule: Human Harre2 Dna (Minus Strand)
Chain: D, B
Fragment: Human Il-2 Promoter Arre2 Site (Minus Strand)
Engineered: Yes

Synthetic: Yes
Other_details: The Core Harre2 Site Occurs Naturally In Hum
symmetry Space Group: P 1 21 1
R_factor 0.248 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
83.667 131.234 68.665 90.00 89.95 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
H, F, I, G


M, N


Primary referenceStructure of a Domain-Swapped FOXP3 Dimer on DNA and Its Function in Regulatory T Cells., Bandukwala HS, Wu Y, Feurer M, Chen Y, Barbosa B, Ghosh S, Stroud JC, Benoist C, Mathis D, Rao A, Chen L, Immunity. 2011 Mar 30. PMID:21458306
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (189 Kb) [Save to disk]
  • Biological Unit Coordinates (3qrf.pdb1.gz) 94 Kb
  • Biological Unit Coordinates (3qrf.pdb2.gz) 93 Kb
  • LPC: Ligand-Protein Contacts for 3QRF
  • CSU: Contacts of Structural Units for 3QRF
  • Structure Factors (477 Kb)
  • Retrieve 3QRF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3QRF from S2C, [Save to disk]
  • Re-refined 3qrf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3QRF 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 3QRF
  • 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 3QRF, from MSDmotif at EBI
  • Fold representative 3qrf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3qrf_H] [3qrf_G] [3qrf] [3qrf_A] [3qrf_B] [3qrf_C] [3qrf_F] [3qrf_N] [3qrf_M] [3qrf_I] [3qrf_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3QRF with the sequences similar proteins can be viewed for 3QRF's classification 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 at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3QRF
  • Community annotation for 3QRF 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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