3V3Q Transcription Antagonist date Dec 14, 2011
title Crystal Structure Of Human Nur77 Ligand-Binding Domain In Co Ethyl 2-[2,3,4 Trimethoxy-6(1-Octanoyl)Phenyl]Acetate
authors Q.Zhang, C.Shi, K.Yang, Y.Chen, Y.Zhan, Q.Wu, T.Lin
compound source
Molecule: Nuclear Receptor Subfamily 4 Group A Member 1
Chain: A, B
Fragment: Ligand-Bingding Domain, Unp Residues 351-598
Synonym: Early Response Protein Nak1, Nuclear Hormone Recep Nur77, Nur77, Orphan Nuclear Receptor Hmr, Orphan Nuclear Tr3, St-59, Testicular Receptor 3;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr4a1, Gfrp1, Hmr, Nak1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b
symmetry Space Group: P 21 21 21
R_factor 0.209 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.242 76.773 129.193 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.22 Å
ligand GOL, NA, TMY enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe orphan nuclear receptor Nur77 regulates LKB1 localization and activates AMPK., Zhan YY, Chen Y, Zhang Q, Zhuang JJ, Tian M, Chen HZ, Zhang LR, Zhang HK, He JP, Wang WJ, Wu R, Wang Y, Shi C, Yang K, Li AZ, Xin YZ, Li TY, Yang JY, Zheng ZH, Yu CD, Lin SC, Chang C, Huang PQ, Lin T, Wu Q, Nat Chem Biol. 2012 Nov;8(11):897-904. doi: 10.1038/nchembio.1069. Epub 2012 Sep , 16. PMID:22983157
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk]
  • Biological Unit Coordinates (3v3q.pdb1.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 3V3Q
  • CSU: Contacts of Structural Units for 3V3Q
  • Structure Factors (438 Kb)
  • Retrieve 3V3Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V3Q from S2C, [Save to disk]
  • Re-refined 3v3q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V3Q 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 3V3Q
  • 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 3V3Q, from MSDmotif at EBI
  • Fold representative 3v3q from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v3q] [3v3q_A] [3v3q_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3V3Q: [HOLI ] by SMART
  • Other resources with information on 3V3Q
  • Community annotation for 3V3Q at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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