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(-) Description

Title :  STRUCTURE OF HUMAN PREGNANE X RECEPTOR LIGAND BINDING DOMAIN WITH ADNECTIN-1
 
Authors :  J. A. Khan
Date :  05 Jan 15  (Deposition) - 11 Feb 15  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,D,E
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,E  (1x)
Keywords :  Pregnane X Receptor, Pxr, Ligand Binding Domain, Steroid Receptor Coactivator-1; Ccr1, Chemokine Receptor-1; Nr, Nuclear Receptor; Af, Activation Function; Cyp, Cytochrome P450; Mdr1, Multi-Drug Resistance Gene-1, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. A. Khan, D. M. Camac, S. Low, A. J. Tebben, D. L. Wensel, M. C. Wright, J. Su, V. Jenny, R. D. Gupta, M. Ruzanov, K. A. Russo, A. Bell, Y. An, J. W. Bryson, M. Gao, P. Gambhire, E. T. Baldwin, D. Gardner, C. L. Cavallaro, J. V. Duncia, J. Hynes
Developing Adnectins That Target Src Co-Activator Binding T Pxr: A Structural Approach Toward Understanding Promiscuity Of Pxr.
J. Mol. Biol. V. 427 924 2015
PubMed-ID: 25579995  |  Reference-DOI: 10.1016/J.JMB.2014.12.022

(-) Compounds

Molecule 1 - NUCLEAR RECEPTOR SUBFAMILY 1 GROUP I MEMBER 2
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPCO7
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneNR1I2, PXR
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymORPHAN NUCLEAR RECEPTOR PAR1, ORPHAN NUCLEAR RECEPTOR PXR, PREGNANE X RECEPTOR, STEROID AND XENOBIOTIC RECEPTOR, SXR
 
Molecule 2 - ADNECTIN-1
    ChainsD, E
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET9D
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABDE
Biological Unit 1 (1x)A D 
Biological Unit 2 (1x) B E

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4S0S)

(-) Sites  (0, 0)

(no "Site" information available for 4S0S)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4S0S)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Ala A:312 -Gly A:313
2Ala B:312 -Gly B:313
3Ile E:85 -Gln E:86

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S0S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S0S)

(-) Exons   (0, 0)

(no "Exon" information available for 4S0S)

(-) 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:273
                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhheeeeee.....eeeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee..eeeee.....hhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0s A 143 LTEEQRMMIRELMDAQMKTFDTTFSHFKNFRLPGVSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRLLRIQDIHPFATPLMQELF 429
                                   152       162       172    || 196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426   
                                                            177|                                                                                                                                                                                                                                             
                                                             192                                                                                                                                                                                                                                             

Chain B from PDB  Type:PROTEIN  Length:273
                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhheeeeee.....eeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....eeee..eeeee.....hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0s B 143 LTEEQRMMIRELMDAQMKTFDTTFSHFKNFRLPGVSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRLLRIQDIHPFATPLMQELF 429
                                   152       162       172    || 196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426   
                                                            177|                                                                                                                                                                                                                                             
                                                             192                                                                                                                                                                                                                                             

Chain D from PDB  Type:PROTEIN  Length:90
                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....eeee.........eeeeeeeeee.......eeeeee....eeee........eeeeeeeee...........eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 4s0s D   7 DLEVVAATPTSLLISWPPPYYVEGVTVFRITYGETGGNSPVQEFTVPYWTETATISGLKPGVDYTITVYAEMYPGSPWMDIQPISINYRT  94
                                    16        26||||  ||34        44        54        64        74     |||84        94
                                              26A||| 29|                                             79A|||           
                                               26B||  32                                              79B||           
                                                26C|                                                   79C|           
                                                 26D                                                     83           

Chain E from PDB  Type:PROTEIN  Length:90
                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....eeee.........eeeeeeeeee.......eeeeee....eeee........eeeeeeeee...........eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 4s0s E   7 DLEVVAATPTSLLISWPPPYYVEGVTVFRITYGETGGNSPVQEFTVPYWTETATISGLKPGVDYTITVYAEMYPGSPWMDIQPISINYRT  94
                                    16        26||||  ||34        44        54        64        74     |||84        94
                                              26A||| 29|                                             79A|||           
                                               26B||  32                                              79B||           
                                                26C|                                                   79C|           
                                                 26D                                                     83           

   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 4S0S)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S0S)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S0S)

(-) Gene Ontology  (29, 29)

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  Cis Peptide Bonds
    Ala A:312 - Gly A:313   [ RasMol ]  
    Ala B:312 - Gly B:313   [ RasMol ]  
    Ile E:85 - Gln E:86   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        NR1I2_HUMAN | O754691ilg 1ilh 1m13 1nrl 1skx 2o9i 2qnv 3ctb 3hvl 3r8d 4j5w 4j5x 4ny9 4s0t 4x1f 4x1g 4xao 4xhd 5a86

(-) Related Entries Specified in the PDB File

1xhd CRYSTAL STRUCTURE OF THE HUMAN PXR-LBD IN COMPLEX WITH COMPOUND-1
4s0t