1YA3 Transcription date Dec 17, 2004
title Crystal Structure Of The Human Mineralocorticoid Receptor Ligand-Binding Domain Bound To Progesterone And Harboring The S810l Mutation Responsible For A Severe Form Of Hypertension
authors J.Fagart, J.Huyet, G.M.Pinon, M.Rochel, C.Mayer, M.E.Rafestin- Oblin
compound source
Molecule: Mineralocorticoid Receptor
Chain: A, B, C
Fragment: Ligand-Binding Domain
Synonym: Mr
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Strain: Uv20hl21-27
Gene: Nr3c2, Mcr, Mlr
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Codon Plus (De3) Ril
Expression_system_vector_type: Pgex
Expression_system_plasmid: Pmrlbdl810
symmetry Space Group: P 31
R_factor 0.237 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
120.724 120.724 42.508 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.34 Å
ligand STR BindingDB enzyme
related structures by homologous chain: 1Y9R
Primary referenceCrystal structure of a mutant mineralocorticoid receptor responsible for hypertension., Fagart J, Huyet J, Pinon GM, Rochel M, Mayer C, Rafestin-Oblin ME, Nat Struct Mol Biol 2005 Jun;12(6):554-5. Epub 2005 May 22. PMID:15908963
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (122 Kb) [Save to disk]
  • Biological Unit Coordinates (1ya3.pdb1.gz) 41 Kb
  • Biological Unit Coordinates (1ya3.pdb2.gz) 40 Kb
  • Biological Unit Coordinates (1ya3.pdb3.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 1YA3
  • CSU: Contacts of Structural Units for 1YA3
  • Likely Quarternary Molecular Structure file(s) for 1YA3
  • Structure Factors (229 Kb)
  • Retrieve 1YA3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YA3 from S2C, [Save to disk]
  • Re-refined 1ya3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YA3 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 1YA3
  • 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 1YA3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1k1ya3, region A:1-310 [Jmol] [rasmolscript] [script source]
        - Domain d1g1ya3, region A:121-502 [Jmol] [rasmolscript] [script source]
  • Fold representative 1ya3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ya3] [1ya3_B] [1ya3_C] [1ya3_A]
  • SWISS-PROT database: [P08235]
  • Domain organization of [MCR_HUMAN] by SWISSPFAM
  • Domain found in 1YA3: [HOLI ] by SMART
  • Other resources with information on 1YA3
  • Community annotation for 1YA3 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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