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(-) Description

Title :  CRYSTAL STRUCTURE OF ACTIVE MU-OPIOID RECEPTOR BOUND TO THE AGONIST BU72
 
Authors :  W. J. Huang, A. Manglik, A. J. Venkatakrishnan, T. Laeremans, E. N. Fein A. L. Sanborn, H. E. Kato, K. E. Livingston, T. S. Thorsen, R. Kling, S. G P. Gmeiner, S. M. Husbands, J. R. Traynor, W. I. Weis, J. Steyaert, R. O. B. K. Kobilka
Date :  15 Jun 15  (Deposition) - 05 Aug 15  (Release) - 02 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ligands, Mice, Agonists, Morphinans, Activation, Receptors, Opioid, Mu, Nanobody, Signaling Protein-Antagonist Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Huang, A. Manglik, A. J. Venkatakrishnan, T. Laeremans, E. N. Feinberg, A. L. Sanborn, H. E. Kato, K. E. Livingston, T. S. Thorsen, R. C. Kling, S. Granier, P. Gmeiner, S. M. Husbands, J. R. Traynor, W. I. Weis, J. Steyaert, R. O. Dror, B. K. Kobilka
Structural Insights Into Mu-Opioid Receptor Activation.
Nature V. 524 315 2015
PubMed-ID: 26245379  |  Reference-DOI: 10.1038/NATURE14886

(-) Compounds

Molecule 1 - MU-TYPE OPIOID RECEPTOR
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Gene: OPRM1, MOR, OPRM
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: MOR-1
 
Molecule 2 - NANOBODY 39
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 8)

Asymmetric/Biological Unit (6, 8)
No.NameCountTypeFull Name
14VO1Ligand/Ion(2S,3S,3AR,5AR,6R,11BR,11CS)-3A-METHOXY-3,14-DIMETHYL-2-PHENYL-2,3,3A,6,7,11C-HEXAHYDRO-1H-6,11B-(EPIMINOETHANO)-3,5A-METHANONAPHTHO[2,1-G]INDOL-10-OL
2CLR1Ligand/IonCHOLESTEROL
3OLC2Ligand/Ion(2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE
4P6G2Ligand/IonHEXAETHYLENE GLYCOL
5PO41Ligand/IonPHOSPHATE ION
6YCM1Mod. Amino AcidS-(2-AMINO-2-OXOETHYL)-L-CYSTEINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:54 , SER A:55 , GLN A:124 , ASP A:147 , VAL A:236 , VAL A:300 , TYR A:326 , HOH A:526 , HOH A:553binding site for residue 4VO A 401
2AC2SOFTWAREOLC A:403 , CLR A:404binding site for residue OLC A 402
3AC3SOFTWARELEU A:254 , ILE A:306 , OLC A:402binding site for residue OLC A 403
4AC4SOFTWAREPRO A:295 , TYR A:299 , ILE A:302 , SER A:317 , OLC A:402binding site for residue CLR A 404
5AC5SOFTWAREHIS A:223 , PRO A:224 , THR A:225binding site for residue PO4 A 405
6AC6SOFTWARETHR A:160 , PHE A:178 , ASN A:191 , TRP A:226 , MET A:243binding site for residue P6G A 406
7AC7SOFTWAREPHE A:84binding site for residue P6G A 407

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:140 -A:217
2B:24 -B:96

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Thr A:60 -Gly A:61
2His A:223 -Pro A:224
3Gly A:267 -Ser A:268
4Cys A:346 -Phe A:347

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C1M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C1M)

(-) Exons   (0, 0)

(no "Exon" information available for 5C1M)

(-) 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:296
                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee..eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c1m A  52 GSHSLcPQTGSPSMVTAITIMALYSIVCVVGLFGNFLVMYVIVRYTKMKTATNIYIFNLALADALATSTLPFQSVNYLMGTWPFGNILCKIVISIDYYNMFTSIFTLCTMSVDRYIAVCHPVKALDFRTPRNAKIVNVCNWILSSAIGLPVMFMATTKYRQGSIDCTLTFSHPTWYWENLLKICVFIFAFIMPVLIITVCYGLMILRLKSVRMLSGSKEKDRNLRRITRMVLVVVAVFIVCWTPIHIYVIIKALITIPETTFQTVSWHFCIALGYTNSCLNPVLYAFLDENFKRCF 347
                                 |  61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341      
                                 |                                                                                                                                                                                                                                                                                                  
                                57-YCM                                                                                                                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:118
                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee..eee.....eeeeee......eeeeeeee......eeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeee......ee...eeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 5c1m B   3 QVQLVESGGGLVRPGGSLRLSCVDSERTSYPMGWFRRAPGKEREFVASITWSGIDPTYADSVADRFTTSRDVANNTLYLQMNSLKHEDTAVYYCAARAPVDYDYWGQGTQVTVSSAAA 127
                                    12        22        32        42        52        62        72        82        92       102|      119        
                                                                                                                             102|                 
                                                                                                                              110
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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 5C1M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C1M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C1M)

(-) Gene Ontology  (70, 70)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Cys A:346 - Phe A:347   [ RasMol ]  
    Gly A:267 - Ser A:268   [ RasMol ]  
    His A:223 - Pro A:224   [ RasMol ]  
    Thr A:60 - Gly A:61   [ RasMol ]  
 

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  OPRM_MOUSE | P42866
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 Related Entries

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

UniProtKB/Swiss-Prot
        OPRM_MOUSE | P42866: 4dkl

(-) Related Entries Specified in the PDB File

4dkl 4DKL CONTAINS THE SAME PROTEIN BOUND TO A MORPHINAN ANTAGONIST