5X07 Dna Binding Protein Dna date Jan 20, 2017
title Crystal Structure Of Foxa2 Dna Binding Domain Bound To A Ful Consensus Dna Site
authors J.Li, M.Guo, Z.Zhou, L.Jiang, X.Chen, L.Qu, D.Wu, Z.Chen, L.Chen, Y.C
compound source
Molecule: Dna (5'-D(Tpcptptpgptptptpapcpaptptp 3');
Chain: D, A, G, J
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (5'-D(Cpapapapaptpgptpapapapcpap 3');
Chain: E, B, H, K
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Hepatocyte Nuclear Factor 3-Beta
Chain: F, C, I, L
Fragment: Unp Residues 157-258
Synonym: Hnf-3b,Forkhead Box Protein A2,Transcription Facto 3b;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Foxa2, Hnf3b, Tcf3b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.240 R_Free 0.279
length a length b length c angle alpha angle beta angle gamma
195.126 71.932 72.155 90.00 103.14 90.00
method X-Ray Diffractionresolution 2.80 Å
F, C, I, L

Primary referenceStructure of the Forkhead Domain of FOXA2 Bound to a Complete DNA Consensus Site., Li J, Dantas Machado AC, Guo M, Sagendorf JM, Zhou Z, Jiang L, Chen X, Wu D, Qu L, Chen Z, Chen L, Rohs R, Chen Y, Biochemistry. 2017 Jul 25;56(29):3745-3753. doi: 10.1021/acs.biochem.7b00211., Epub 2017 Jul 11. PMID:28644006
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (232 Kb) [Save to disk]
  • Biological Unit Coordinates (5x07.pdb1.gz) 58 Kb
  • Biological Unit Coordinates (5x07.pdb2.gz) 58 Kb
  • Biological Unit Coordinates (5x07.pdb3.gz) 57 Kb
  • Biological Unit Coordinates (5x07.pdb4.gz) 58 Kb
  • CSU: Contacts of Structural Units for 5X07
  • Structure Factors (620 Kb)
  • Retrieve 5X07 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5X07 from S2C, [Save to disk]
  • View 5X07 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 5X07
  • 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
  • Fold representative 5x07 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5x07_F] [5x07_C] [5x07_H] [5x07_G] [5x07_D] [5x07_E] [5x07_J] [5x07_K] [5x07_L] [5x07_B] [5x07_A] [5x07_I]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5X07
  • Community annotation for 5X07 at PDBWiki (http://pdbwiki.org)

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