2H8R Transcription Activator Dna date Jun 07, 2006
title Hepatocyte Nuclear Factor 1b Bound To Dna: Mody5 Gene Product
authors P.Lu, G.B.Rha, Y.I.Chi
compound source
Molecule: Hepatocyte Nuclear Factor 1-Beta
Chain: A, B
Fragment: Dna Binding Domain (Residues 91-310)
Synonym: Hnf-1beta, Hnf-1b, Variant Hepatic Nuclear Factor 1, Vhnf1, Homeoprotein Lfb3, Transcription Factor 2, Tcf-2;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet41a

Molecule: 5'- D(Cptptpgpgptptpapaptpapaptptpcpapcpcpap G)-3';
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: 5'- D(Gpcptpgpgptpgpapaptptpaptptpapapcpcpap A)-3';
Chain: F
Engineered: Yes

Synthetic: Yes
symmetry Space Group: H 3
R_factor 0.223 R_Free 0.290
length a length b length c angle alpha angle beta angle gamma
174.689 174.689 72.434 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.20 Å
note 2H8R is a representative structure
A, B

Primary referenceStructural basis of disease-causing mutations in hepatocyte nuclear factor 1beta., Lu P, Rha GB, Chi YI, Biochemistry. 2007 Oct 30;46(43):12071-80. Epub 2007 Oct 9. PMID:17924661
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (2h8r.pdb1.gz) 76 Kb
  • CSU: Contacts of Structural Units for 2H8R
  • Likely Quarternary Molecular Structure file(s) for 2H8R
  • Structure Factors (259 Kb)
  • Retrieve 2H8R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H8R from S2C, [Save to disk]
  • Re-refined 2h8r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H8R 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 2H8R
  • 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 2H8R, from MSDmotif at EBI
  • Fold representative 2h8r from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h8r_E] [2h8r_F] [2h8r_A] [2h8r_B] [2h8r]
  • SWISS-PROT database: [P35680]
  • Domain organization of [HNF1B_HUMAN] by SWISSPFAM
  • Domain found in 2H8R: [HOX ] by SMART
  • Other resources with information on 2H8R
  • Community annotation for 2H8R 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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