3VHU Transcription Inhibitor date Sep 07, 2011
title Mineralocorticoid Receptor Ligand-Binding Domain With Spiron
authors S.Sogabe, N.Habuka
compound source
Molecule: Mineralocorticoid Receptor
Chain: A
Fragment: Ligand-Binding Domain, Unp Residues 712-984
Synonym: Mr, Nuclear Receptor Subfamily 3 Group C Member 2
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr3c2, Mcr, Mlr
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: C 2 2 21
R_factor 0.190 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.526 171.509 42.358 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.11 Å
ligand SNL BindingDB enzyme
Primary referenceIdentification of Benzoxazin-3-one Derivatives as Novel, Potent, and Selective Nonsteroidal Mineralocorticoid Receptor Antagonists., Hasui T, Matsunaga N, Ora T, Ohyabu N, Nishigaki N, Imura Y, Igata Y, Matsui H, Motoyaji T, Tanaka T, Habuka N, Sogabe S, Ono M, Siedem CS, Tang TP, Gauthier C, De Meese LA, Boyd SA, Fukumoto S, J Med Chem. 2011 Dec 22;54(24):8616-31. Epub 2011 Nov 29. PMID:22074142
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (3vhu.pdb1.gz) 90 Kb
  • LPC: Ligand-Protein Contacts for 3VHU
  • CSU: Contacts of Structural Units for 3VHU
  • Structure Factors (288 Kb)
  • Retrieve 3VHU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VHU from S2C, [Save to disk]
  • Re-refined 3vhu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VHU 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 3VHU
  • 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 3VHU, from MSDmotif at EBI
  • Fold representative 3vhu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vhu_A] [3vhu]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3VHU: [HOLI ] by SMART
  • Other resources with information on 3VHU
  • Community annotation for 3VHU at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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