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(-) Description

Title :  BRAIN PENETRANT LIVER X RECEPTOR (LXR) MODULATORS BASED ON A 2,4,5,6-TETRAHYDROPYRROLO[3,4-C]PYRAZOLE CORE
 
Authors :  G. Chen, B. M. Mckeever
Date :  21 Jul 16  (Deposition) - 21 Sep 16  (Release) - 19 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  E,F  (1x)
Keywords :  Nuclear Receptor, Liver X Receptor, Lxrbeta-Lbd/Rxrbeta-Lbd Heterodimer, Chemical Modulators, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. M. Tice, P. B. Noto, K. Y. Fan, W. Zhao, S. D. Lotesta, C. Dong, A. P. Marcus, Y. J. Zheng, G. Chen, Z. Wu, R. Van Orden, J. Zhou, Y. Bukhtiyarov, Y. Zhao, K. Lipinski, L. Howard, J. Guo, G. Kandpal, S. Meng, A. Hardy, P. Krosky, R. E. Gregg, K. Leftheris, B. M. Mckeever, S. B. Singh, D. Lala, G. M. Mcgeehan, L. Zhuang, D. A. Claremon
Brain Penetrant Liver X Receptor (Lxr) Modulators Based On 2, 4, 5, 6-Tetrahydropyrrolo[3, 4-C]Pyrazole Core.
Bioorg. Med. Chem. Lett. V. 26 5044 2016
PubMed-ID: 27599745  |  Reference-DOI: 10.1016/J.BMCL.2016.08.089

(-) Compounds

Molecule 1 - OXYSTEROLS RECEPTOR LXR-BETA
    Chains: A, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NR1H2, LXRB, NER, UNR
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: LIVER X RECEPTOR BETA,NUCLEAR RECEPTOR NER,NUCLEAR RECEPTOR SUBFAMILY 1 GROUP H MEMBER 2,UBIQUITOUSLY-EXPRESSED NUCLEAR RECEPTOR
 
Molecule 2 - RETINOIC ACID RECEPTOR RXR-BETA
    Chains: B, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: RXRB, NR2B2
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NUCLEAR RECEPTOR SUBFAMILY 2 GROUP B MEMBER 2,RETINOID X RECEPTOR BETA

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABEF
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
16Y42Ligand/Ion[2-[(6~{R})-2-(3-METHYLSULFONYLPHENYL)-6-PROPAN-2-YL-4,6-DIHYDROPYRROLO[3,4-C]PYRAZOL-5-YL]-4-(TRIFLUOROMETHYL)PYRIMIDIN-5-YL]METHANOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
16Y41Ligand/Ion[2-[(6~{R})-2-(3-METHYLSULFONYLPHENYL)-6-PROPAN-2-YL-4,6-DIHYDROPYRROLO[3,4-C]PYRAZOL-5-YL]-4-(TRIFLUOROMETHYL)PYRIMIDIN-5-YL]METHANOL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
16Y41Ligand/Ion[2-[(6~{R})-2-(3-METHYLSULFONYLPHENYL)-6-PROPAN-2-YL-4,6-DIHYDROPYRROLO[3,4-C]PYRAZOL-5-YL]-4-(TRIFLUOROMETHYL)PYRIMIDIN-5-YL]METHANOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:268 , PHE A:271 , THR A:272 , LEU A:274 , MET A:312 , THR A:316 , ARG A:319 , PHE A:329 , LEU A:330 , LEU A:345 , HIS A:435 , GLN A:438binding site for residue 6Y4 A 501
2AC2SOFTWAREPHE E:268 , PHE E:271 , THR E:272 , LEU E:274 , MET E:312 , THR E:316 , PHE E:329 , LEU E:330 , LEU E:345 , HIS E:435 , GLN E:438 , LEU E:449binding site for residue 6Y4 E 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5KYA)

(-) 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:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee...eeehhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh.hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kya A 218 VQLTAAQELMIQQLVAAQLQCNKRSFSDQPKVTPWPLGSASQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWDKILHRLLQD 477
                                   227       237       247      |263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453    || 473    
                                                              254|                                                                                                                                                                                                  458|        
                                                               261                                                                                                                                                                                                   469        


Chain B from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.....eee.....eeehhhhhhh.hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh...hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5kya B 297 EEMPVDRILEAELAVEPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSIDVRDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMRMDKTELGCLRAIILFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTFLMEMLEASHKILHRLLQ 543
                                   306     ||338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508     ||522     ||537      
                                         312|                                                                                                                                                                                514|      528|         
                                          335                                                                                                                                                                                 519       534         


Chain E from PDB  Type:PROTEIN  Length:251
                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee...eeehhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh..hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kya E 218 VQLTAAQELMIQQLVAAQLQCNKRSFSDQPKVTPWPLGADPASGSASQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWDVKILHRLLQD 477
                                   227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457 ||    476 
                                                                                                                                                                                                                                                                           459|        
                                                                                                                                                                                                                                                                            469        


Chain F from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.....eee.....eeehhhhhhh.hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh....hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kya F 297 EEMPVDRILEAELAVEPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSIDVRDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMRMDKTELGCLRAIILFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTFLMEMLEAGSHKILHRLLQ 543
                                   306     ||338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508     ||522     ||536       
                                         312|                                                                                                                                                                                514|      528|          
                                          335                                                                                                                                                                                 519       533
   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 5KYA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (61, 77)

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 Related Entries

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

UniProtKB/Swiss-Prot
        NR1H2_HUMAN | P55055: 1p8d 1pq6 1pq9 1pqc 1upv 1upw 3kfc 3l0e 4dk7 4dk8 4nqa 4rak 5hjp 5i4v 5jy3 5kyj
        RXRB_HUMAN | P28702: 1h9u 1uhl 5hjp 5i4v 5kyj

(-) Related Entries Specified in the PDB File

5i4v RELATED CO-CRYSTAL COMPLEX