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(-) Description

Title :  CRYSTAL STRUCTURE OF LXRBETA (NUCLEAR RECEPTOR SUBFAMILY 1, GROUP H, MEMBER 2) COMPLEXED WITH BMS-852927
 
Authors :  J. K. Muckelbauer
Date :  13 May 16  (Deposition) - 02 Nov 16  (Release) - 04 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Nhr, Nr1H2, Lxr-B, Lxrb, Unr, Ner-I, Rip15, Ner, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. K. Kick, B. B. Busch, R. Martin, W. C. Stevens, V. Bollu, Y. Xie, B. C. Boren, M. C. Nyman, M. H. Nanao, L. Nguyen, A. Plonowski, I. G. Schulman, G. Yan, H. Zhang, X. Hou, M. N. Valente, R. Narayanan, K. Behnia, A. D. Rodrigues, B. Brock, J. Smalley, G. H. Cantor, J. Lupisella, P. Sleph, D. Grimm, J. Ostrowski, R. R. Wexler, T. Kirchgessner, R. Mohan
Discovery Of Highly Potent Liver X Receptor Beta Agonists.
Acs Med Chem Lett V. 7 1207 2016
PubMed-ID: 27994765  |  Reference-DOI: 10.1021/ACSMEDCHEMLETT.6B00234

(-) Compounds

Molecule 1 - OXYSTEROLS RECEPTOR LXR-BETA
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 213-460
    Gene: NR1H2, LXRB, NER, UNR
    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

 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, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
16OX4Ligand/Ion2-[2-[2-[2,6-BIS(CHLORANYL)PHENYL]PROPAN-2-YL]-1-[2-FLUORANYL-4-[3-FLUORANYL-4-(HYDROXYMETHYL)-5-METHYLSULFONYL-PHENYL]PHENYL]IMIDAZOL-4-YL]PROPAN-2-OL
2BU12Ligand/Ion1,4-BUTANEDIOL
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
16OX2Ligand/Ion2-[2-[2-[2,6-BIS(CHLORANYL)PHENYL]PROPAN-2-YL]-1-[2-FLUORANYL-4-[3-FLUORANYL-4-(HYDROXYMETHYL)-5-METHYLSULFONYL-PHENYL]PHENYL]IMIDAZOL-4-YL]PROPAN-2-OL
2BU11Ligand/Ion1,4-BUTANEDIOL
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
16OX2Ligand/Ion2-[2-[2-[2,6-BIS(CHLORANYL)PHENYL]PROPAN-2-YL]-1-[2-FLUORANYL-4-[3-FLUORANYL-4-(HYDROXYMETHYL)-5-METHYLSULFONYL-PHENYL]PHENYL]IMIDAZOL-4-YL]PROPAN-2-OL
2BU11Ligand/Ion1,4-BUTANEDIOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:271 , LEU A:274 , ALA A:275 , SER A:278 , GLU A:281 , MET A:312 , GLU A:315 , THR A:316 , ARG A:319 , PHE A:329 , LEU A:330 , LEU A:345binding site for residue 6OX A 501
2AC2SOFTWAREPHE B:268 , PHE B:271 , THR B:272 , LEU B:274 , ALA B:275 , SER B:278 , GLU B:281 , ILE B:309 , MET B:312 , GLU B:315 , THR B:316 , ARG B:319 , PHE B:329 , LEU B:330 , PHE B:340 , PHE B:349 , HIS B:435 , TRP B:457 , BU1 B:502 , HOH B:612binding site for residue 6OX B 501
3AC3SOFTWAREGLN B:235 , CYS B:238 , ASN B:239 , GLU B:281 , GLU B:315 , ILE B:374 , 6OX B:501binding site for residue BU1 B 502
4AC4SOFTWAREPHE C:271 , THR C:272 , LEU C:274 , ALA C:275 , ILE C:277 , SER C:278 , GLU C:281 , MET C:312 , LEU C:313 , GLU C:315 , THR C:316 , ARG C:319 , PHE C:329 , LEU C:330 , PHE C:340 , ILE C:353binding site for residue 6OX C 501
5AC5SOFTWAREPHE D:268 , PHE D:271 , THR D:272 , LEU D:274 , ALA D:275 , SER D:278 , GLU D:281 , ILE D:309 , MET D:312 , GLU D:315 , THR D:316 , ARG D:319 , PHE D:329 , LEU D:330 , PHE D:340 , PHE D:349 , TRP D:457binding site for residue 6OX D 501
6AC6SOFTWAREGLN D:235 , PHE D:285 , ILE D:311 , GLU D:315 , ILE D:374binding site for residue BU1 D 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5JY3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5JY3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5JY3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5JY3)

(-) Exons   (0, 0)

(no "Exon" information available for 5JY3)

(-) 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:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee...eeehhhhhhh...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5jy3 A 219 QLTAAQELMIQQLVAAQLQCNKRPKVTPWPRDARQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWD 458
                                   228       238  ||   253|      270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450        
                                                241|   253|                                                                                                                                                                                                     
                                                 247    261                                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:230
                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee...eeeehhhhhh...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jy3 B 219 QLTAAQELMIQQLVAAQLQCNKRSFPKVTPWPRDARQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWD 458
                                   228       238    || 251 ||    268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458
                                                  243|   253|                                                                                                                                                                                                     
                                                   247    261                                                                                                                                                                                                     


Chain C from PDB  Type:PROTEIN  Length:231
                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eee...eeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jy3 C 219 QLTAAQELMIQQLVAAQLQCNKRSFSDQPKVTPWPPQSRDARQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLKLPPLLSEIWD 458
                                   228       238       248    || 262       272       282       292       302       312       322       334       344       354       364       374       384       394       404       414       424       434       444|      457 
                                                            253|                                                                     330|                                                                                                            444|          
                                                             258                                                                      333                                                                                                             448          


Chain D from PDB  Type:PROTEIN  Length:227
                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee...eeehhhhhhh...hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jy3 D 219 QLTAAQELMIQQLVAAQLQCNKRKVTPWPRDARQQRFAHFTELAIISVQEIVDFAKQVPGFLQLGREDQIALLKASTIEIMLLETARRYNHETECITFLKDFTYSKDDFHRAGLQVEFINPIFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRMLMKLVSLRTLSSVHSEQVFALRLQDKKLPPLLSEIWD 458
                                   228       238  ||   261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       
                                                241|  253|                                                                                                                                                                                                     
                                                 248   261
   Legend:   → Mismatch (orange background)
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    → 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 5JY3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5JY3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5JY3)

(-) Gene Ontology  (50, 50)

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

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