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(-) Description

Title :  IDENTIFICATION OF LXRBETA SELECTIVE AGONISTS FOR THE TREATMENT OF ALZHEIMER'S DISEASE
 
Authors :  G. Parthasarathy, D. Klein
Date :  13 Jan 16  (Deposition) - 06 Apr 16  (Release) - 27 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Agonist, Alzheimer'S, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. J. Stachel, C. Zerbinatti, M. T. Rudd, M. Cosden, S. Suon, K. K. Nanda K. Wessner, J. Dimuzio, J. Maxwell, Z. Wu, J. M. Uslaner, M. S. Michener P. Szczerba, E. Brnardic, V. Rada, Y. Kim, R. Meissner, P. Wuelfing, Y. Yuan, J. Ballard, M. Holahan, D. J. Klein, J. Lu, X. Fradera, G. Parthasarathy, V. N. Uebele, Z. Chen, Y. Li, J. Li, A. J. Cooke, D. J. Bennett, M. T. Bilodeau, J. Renger
Identification And In Vivo Evaluation Of Liver X Receptor Beta-Selective Agonists For The Potential Treatment Of Alzheimer'S Disease.
J. Med. Chem. V. 59 3489 2016
PubMed-ID: 27011007  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B00176

(-) Compounds

Molecule 1 - RETINOIC ACID RECEPTOR RXR-BETA
    ChainsA, C
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneRXRB, NR2B2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymNUCLEAR RECEPTOR SUBFAMILY 2 GROUP B MEMBER 2,RETINOID X RECEPTOR BETA
 
Molecule 2 - OXYSTEROLS RECEPTOR LXR-BETA
    ChainsB, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneNR1H2, LXRB, NER, UNR
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymLIVER X RECEPTOR BETA,NUCLEAR RECEPTOR NER,NUCLEAR RECEPTOR SUBFAMILY 1 GROUP H MEMBER 2,UBIQUITOUSLY-EXPRESSED NUCLEAR RECEPTOR

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
16682Ligand/Ion2-CHLORO-4-{1'-[(2R)-2-HYDROXY-3-METHYL-2-(TRIFLUOROMETHYL)BUTANOYL]-4,4'-BIPIPERIDIN-1-YL}-N,N-DIMETHYLBENZAMIDE
2PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
16681Ligand/Ion2-CHLORO-4-{1'-[(2R)-2-HYDROXY-3-METHYL-2-(TRIFLUOROMETHYL)BUTANOYL]-4,4'-BIPIPERIDIN-1-YL}-N,N-DIMETHYLBENZAMIDE
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
16681Ligand/Ion2-CHLORO-4-{1'-[(2R)-2-HYDROXY-3-METHYL-2-(TRIFLUOROMETHYL)BUTANOYL]-4,4'-BIPIPERIDIN-1-YL}-N,N-DIMETHYLBENZAMIDE
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN B:239 , SER B:242 , THR B:272 , LEU B:274 , ALA B:275 , ILE B:277 , GLU B:281 , MET B:312 , THR B:316 , ARG B:319 , PHE B:329 , LEU B:330 , LEU B:345 , PHE B:349 , HIS B:435 , GLN B:438 , LEU B:442 , LEU B:449 , TRP B:457binding site for residue 668 B 501
2AC2SOFTWAREVAL B:218 , GLN B:219 , LEU B:220binding site for residue PEG B 502
3AC3SOFTWAREPRO B:251 , LYS C:478binding site for residue PEG C 601
4AC4SOFTWAREASN D:239 , PHE D:268 , THR D:272 , LEU D:274 , ALA D:275 , ILE D:277 , SER D:278 , MET D:312 , THR D:316 , ARG D:319 , PHE D:329 , LEU D:330 , LEU D:345 , PHE D:349 , HIS D:435 , GLN D:438 , LEU D:442 , TRP D:457binding site for residue 668 D 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5HJP)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5HJP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5HJP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HJP)

(-) Exons   (0, 0)

(no "Exon" information available for 5HJP)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee.....eeehhhhhhh.hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh..hhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hjp A 299 MPVDRILEAELAVEVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSIDVRDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMRMDKTELGCLRAIILFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLEAKILHRLLQ 548
                                   308   ||  341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521      |543     
                                       312|                                                                                                                                                                                             528|       
                                        336                                                                                                                                                                                              541       

Chain B from PDB  Type:PROTEIN  Length:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....eeee...eeehhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhh..hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hjp B 217 GVQLTAAQELMIQQLVAAQLQCNKRSFSDQPKVTPWPADPASGSASQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWDVHEGSGSGSHKILHRLLQD 477
                                   226       236       246      |258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468         
                                                              253|                                                                                                                                                                                                                             
                                                               256                                                                                                                                                                                                                             

Chain C from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.....eee.....eeehhhhhhh.hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5hjp C 299 MPVDRILEAELAVEPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSIDVRDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMRMDKTELGCLRAIILFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLEAKILHRLLQ 548
                                   308   ||  340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       542      
                                       312|                                                                                                                                                                                              528|       
                                        335                                                                                                                                                                                               541       

Chain D from PDB  Type:PROTEIN  Length:251
                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....eeee...eeehhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhh..hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hjp D 219 QLTAAQELMIQQLVAAQLQCNKRSFSDQPKVTPWPSASQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWDVHEGSGSGSHKILHRLLQD 477
                                   228       238       248    || 266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476 
                                                            253|                                                                                                                                                                                                                       
                                                             262                                                                                                                                                                                                                       

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5HJP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HJP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HJP)

(-) Gene Ontology  (61, 77)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        NR1H2_HUMAN | P550551p8d 1pq6 1pq9 1pqc 1upv 1upw 3kfc 3l0e 4dk7 4dk8 4nqa 4rak 5i4v 5jy3 5kya 5kyj
        RXRB_HUMAN | P287021h9u 1uhl 5i4v 5kya 5kyj

(-) Related Entries Specified in the PDB File

5hjs