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(-) Description

Title :  STRUCTURAL BASIS FOR SMALL MOLECULE NDB AS A SELECTIVE ANTAGONIST OF FXR
 
Authors :  X. Xu, L. Chen, L. Hu, X. Shen
Date :  20 Jan 14  (Deposition) - 25 Mar 15  (Release) - 19 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Bile Acid Sensor, Nuclear, Nuclear Protein Receptor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Xu, X. Xu, P. Liu, Z. Y. Zhu, J. Chen, H. A. Fu, L. L. Chen, L. H. Hu, X. She
Structural Basis For Small Molecule Ndb (N-Benzyl-N-(3-(Tert-Butyl)-4-Hydroxyphenyl)-2, 6-Dichloro-4 (Dimethylamino) Benzamide) As A Selective Antagonist Of Farnesoid X Receptor Alpha (Fxr Alpha ) In Stabilizing The Homodimerization Of The Receptor.
J. Biol. Chem. V. 290 19888 2015
PubMed-ID: 26100621  |  Reference-DOI: 10.1074/JBC.M114.630475

(-) Compounds

Molecule 1 - BILE ACID RECEPTOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 258-483
    Gene: NR1H4, BAR, FXR, HRR1, RIP14
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: FXR-LBD, FARNESOID X-ACTIVATED RECEPTOR, FARNESOL RECEPTOR HRR-1, NUCLEAR RECEPTOR SUBFAMILY 1 GROUP H MEMBER 4, RETINOID X RECEPTOR-INTERACTING PROTEIN 14, RXR-INTERACTING PROTEIN 14

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1XX92Ligand/IonN-BENZYL-N-(3-TERT-BUTYL-4-HYDROXYPHENYL)-2,6-DICHLORO-4-(DIMETHYLAMINO)BENZAMIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:291 , ALA A:295 , HIS A:298 , VAL A:299 , MET A:332 , PHE A:333 , SER A:336 , ILE A:366 , MET A:369 , TYR A:373 , ALA A:452 , LEU A:455 , MET A:456 , HOH A:606BINDING SITE FOR RESIDUE XX9 A 501
2AC2SOFTWARELEU B:291 , ALA B:295 , HIS B:298 , VAL B:299 , PHE B:333 , SER B:336 , TYR B:373 , ALA B:452 , LEU B:455 , HOH B:606BINDING SITE FOR RESIDUE XX9 B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4OIV)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:344 -Pro A:345

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4OIV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4OIV)

(-) Exons   (0, 0)

(no "Exon" information available for 4OIV)

(-) Sequences/Alignments

Asymmetric/Biological 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:210
                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh...hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhh.eeeee....hhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4oiv A 248 ELTPDQQTLLHFIMDSYNKSAEENFLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIFNKKLPSGHSDLLEERIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKDREAVEKLQEPLLDVLQKLCKIHQPENPQHFAELLGRLTELRTFNHHHAEMLMSWRVNDHKFTPLLEEIW 473
                                   257       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473
                                            266|                                                                                                                                                                                              
                                             283                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..hhhhhhhh.eeeee...hhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oiv B 248 ELTPDQQTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIFNSDLLEERIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKDREAVEKLQEPLLDVLQKLCKIHQPENPQHFAELLGRLTELRTFNHHHAEMLMSWRVNDHKTPLLEEIW 473
                                   257       267       277       287       297       307       317       327       337   ||  354       364       374       384       394       404       414       424       434       444       454       464|       
                                                                                                                       341|                                                                                                                464|       
                                                                                                                        349                                                                                                                 466
   Legend:   → Mismatch (orange background)
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  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 4OIV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4OIV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4OIV)

(-) Gene Ontology  (66, 66)

Asymmetric/Biological Unit(hide GO term definitions)

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        NR1H4_HUMAN | Q96RI1: 1osh 1osk 3bej 3dct 3dcu 3fli 3fxv 3gd2 3hc5 3hc6 3l1b 3okh 3oki 3olf 3omk 3omm 3oof 3ook 3p88 3p89 3rut 3ruu 3rvf 4qe6 4qe8 4wvd 5iaw 5ick 5q0i 5q0j 5q0k 5q0l 5q0m 5q0n 5q0o 5q0p 5q0q 5q0r 5q0s 5q0t 5q0u 5q0v 5q0w 5q0x 5q0y 5q0z 5q10 5q11 5q12 5q13 5q14 5q15 5q16 5q17 5q18 5q19 5q1a 5q1b 5q1c 5q1d 5q1e 5q1f 5q1g 5q1h 5q1i

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