1YY4	Transcription	date	Feb 23, 2005
title	Crystal Structure Of Estrogen Receptor Beta Complexed With 1-Chloro-6-(4-Hydroxy-Phenyl)-Naphthalen-2-Ol
authors	R.E.Mewshaw, R.J.Edsall Jr., C.Yang, E.S.Manas, Z.B.Xu, R.A.Henderson, J.C.Keith Jr., H.A.Harris
compound		source
Molecule: Estrogen Receptor Beta Chain: A, B Fragment: Ligand Binding Domain Synonym: Er-Beta Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Esr2, Estrb, Nr3a2 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21de3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet16b
Molecule: Steroid Receptor Coactivator-1 Chain: C, D Engineered: Yes		Synthetic: Yes Other_details: This Sequence Was Derived From Steroid Receptor Coactivator-1
symmetry	Space Group: P 21 21 21	R_factor 0.214 R_Free 0.269
crystal cell	length a length b length c angle alpha angle beta angle gamma 51.970 87.677 99.760 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.70 Å
ligand	4NA BindingDB	enzyme
Primary reference	ERbeta ligands. 3. Exploiting two binding orientations of the 2-phenylnaphthalene scaffold to achieve ERbeta selectivity., Mewshaw RE, Edsall RJ Jr, Yang C, Manas ES, Xu ZB, Henderson RA, Keith JC Jr, Harris HA, J Med Chem. 2005 Jun 16;48(12):3953-79. PMID:15943471

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk] Biological Unit Coordinates (1yy4.pdb1.gz) 78 Kb LPC: Ligand-Protein Contacts for 1YY4 CSU: Contacts of Structural Units for 1YY4 Likely Quarternary Molecular Structure file(s) for 1YY4 Retrieve 1YY4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YY4 from S2C, [Save to disk]

View 1YY4 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1YY4

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 1YY4, from MSDmotif at EBI Fold representative 1yy4 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yy4_A] [1yy4_B] [1yy4_C] [1yy4_D] SWISS-PROT database: [Q92731] [Q15788] Domain organization of [ESR2_HUMAN] [NCOA1_HUMAN] by SWISSPFAM Domain found in 1YY4: [HOLI ] by SMART Alignments of the sequence of 1YY4 with the sequences similar proteins can be viewed for 1YY4's classification [ESR2_HUMAN] [NCOA1_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [ESR2_HUMAN] [NCOA1_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1YY4

Community annotation for 1YY4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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