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(-) Description

Title :  MOLECULAR MODEL OF THE CHICK P2Y1 PURINOCEPTOR
 
Authors :  A. M. Van Rhee, B. Fischer, P. J. M. Van Galen, K. A. Jacobson
Date :  19 Jan 96  (Deposition) - 11 Jul 96  (Release) - 11 Jul 96  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  1,2,3,4,5,6,7,_#
#:   chains that contain no standard or modified protein/DNA/RNA residue)
 
Keywords :  P2 Purinoceptor, G Protein-Coupled Receptor (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. M. Van Rhee, B. Fischer, P. J. M. Van Galen, K. A. Jacobson
Modelling The P2Y Purinoceptor Using Rhodopsin As Template
Drug Des. Discovery V. 13 133 1995
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CHICK P2Y1 PURINOCEPTOR
    Chains1
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN
 
Molecule 2 - CHICK P2Y1 PURINOCEPTOR
    Chains2
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN
 
Molecule 3 - CHICK P2Y1 PURINOCEPTOR
    Chains3
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN
 
Molecule 4 - CHICK P2Y1 PURINOCEPTOR
    Chains4
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN
 
Molecule 5 - CHICK P2Y1 PURINOCEPTOR
    Chains5
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN
 
Molecule 6 - CHICK P2Y1 PURINOCEPTOR
    Chains6
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN
 
Molecule 7 - CHICK P2Y1 PURINOCEPTOR
    Chains7
    FragmentSEVEN TRANSMEMBRANE HELICES ONLY
    Organism CommonCHICKEN
    Organism ScientificGALLUS GALLUS
    SynonymP2YR1, P2 PURINOCEPTOR-P2Y
    TissueBRAIN

 Structural Features

(-) Chains, Units

  
Theoretical Model 
#:   chains that contain no standard or modified protein/DNA/RNA residue)
 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 15)

Theoretical Model (3, 15)
No.NameCountTypeFull Name
1ACE7Mod. Amino AcidACETYL GROUP
2ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
3NH27Mod. Amino AcidAMINO GROUP

(-) Sites  (0, 0)

(no "Site" information available for 1DDD)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1DDD)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1DDD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1DDD)

(-) PROSITE Motifs  (1, 1)

Theoretical Model (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1G_PROTEIN_RECEP_F1_1PS00237 G-protein coupled receptors family 1 signature.P2RY1_CHICK126-142  13:126-138

(-) Exons   (1, 7)

Theoretical Model (1, 7)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSGALT000000168641ENSGALE00000112429chr9:24937544-249364681077P2RY1_CHICK1-35835871:39-71
2:75-104
3:113-139
4:152-180
5:203-233
6:248-277
7:288-322
33
30
27
29
31
30
35

(-) Sequences/Alignments

Theoretical Model
   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 1 from PDB  Type:PROTEIN  Length:33
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:33
                                    48        58        68   
          P2RY1_CHICK    39 QFYYLPTVYILVFITGFLGNSVAIWMFVFHMRP  71
               SCOP domains --------------------------------- SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: 1:39-71            Transcript 1
                 1ddd 1  39 xFYYLPTVYILVFITGFLGNSVAIWMFVFHMRx  71
                            |       48        58        68  |
                            |                              71-NH2
                           39-ACE                            

Chain 2 from PDB  Type:PROTEIN  Length:30
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:30
                                    84        94       104
          P2RY1_CHICK    75 ISVYMFNLALADFLYVLTLPALIFYYFNKT 104
               SCOP domains ------------------------------ SCOP domains
               CATH domains ------------------------------ CATH domains
               Pfam domains ------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: 2:75-104        Transcript 1
                 1ddd 2  75 xSVYMFNLALADFLYVLTLPALIFYYFNKx 104
                            |       84        94       104
                            |                          104-NH2
                           75-ACE                         

Chain 3 from PDB  Type:PROTEIN  Length:27
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:27
                                   122       132       
          P2RY1_CHICK   113 CKLQRFIFHVNLYGSILFLTCISVHRY 139
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE -------------G_PROTEIN_RECE PROSITE
               Transcript 1 Exon 1.1  PDB: 3:113-139    Transcript 1
                 1ddd 3 113 xKLQRFIFHVNLYGSILFLTCISVHRx 139
                            |      122       132      |
                            |                       139-NH2
                          113-ACE                      

Chain 4 from PDB  Type:PROTEIN  Length:29
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:29
                                   161       171         
          P2RY1_CHICK   152 LKKKNAVYVSSLVWALVVAVIAPILFYSG 180
               SCOP domains ----------------------------- SCOP domains
               CATH domains ----------------------------- CATH domains
               Pfam domains ----------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------- SAPs(SNPs)
                    PROSITE ----------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: 4:152-180      Transcript 1
                 1ddd 4 152 xKKKNAVYVSSLVWALVVAVIAPILFYSx 180
                            |      161       171        |
                            |                         180-NH2
                          152-ACE                        

Chain 5 from PDB  Type:PROTEIN  Length:31
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:31
                                   212       222       232 
          P2RY1_CHICK   203 YFVYSMCTTVFMFCIPFIVILGCYGLIVKAL 233
               SCOP domains ------------------------------- SCOP domains
               CATH domains ------------------------------- CATH domains
               Pfam domains ------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: 5:203-233        Transcript 1
                 1ddd 5 203 xFVYSMCTTVFMFCIPFIVILGCYGLIVKAx 233
                            |      212       222       232|
                            |                           233-NH2
                          203-ACE                          

Chain 6 from PDB  Type:PROTEIN  Length:30
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:30
                                   257       267       277
          P2RY1_CHICK   248 IYLVIIVLTVFAVSYLPFHVMKTLNLRARL 277
               SCOP domains ------------------------------ SCOP domains
               CATH domains ------------------------------ CATH domains
               Pfam domains ------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: 6:248-277       Transcript 1
                 1ddd 6 248 xYLVIIVLTVFAVSYLPFHVMKTLNLRARx 277
                            |      257       267       277
                            |                          277-NH2
                          248-ACE                         

Chain 7 from PDB  Type:PROTEIN  Length:35
 aligned with P2RY1_CHICK | P34996 from UniProtKB/Swiss-Prot  Length:362

    Alignment length:35
                                   297       307       317     
          P2RY1_CHICK   288 NDKVYATYQVTRGLASLNSCVDPILYFLAGDTFRR 322
               SCOP domains ----------------------------------- SCOP domains
               CATH domains ----------------------------------- CATH domains
               Pfam domains ----------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: 7:288-322            Transcript 1
                 1ddd 7 288 xDKVYATYQVTRGLASLNSCVDPILYFLAGDTFRx 322
                            |      297       307       317    |
                            |                               322-NH2
                          288-ACE                              

   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 1DDD)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1DDD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1DDD)

(-) Gene Ontology  (15, 15)

Theoretical Model(hide GO term definitions)
Chain 1,2,3,4,5,6,7   (P2RY1_CHICK | P34996)
molecular function
    GO:0045028    G-protein coupled purinergic nucleotide receptor activity    Combining with a purine nucleotide and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex.
    GO:0004930    G-protein coupled receptor activity    Combining with an extracellular signal and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex.
    GO:0004871    signal transducer activity    Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
biological process
    GO:0035589    G-protein coupled purinergic nucleotide receptor signaling pathway    The series of molecular signals generated as a consequence of a receptor binding to an extracellular purine nucleotide and transmitting the signal to a heterotrimeric G-protein complex to initiate a change in cell activity.
    GO:0007186    G-protein coupled receptor signaling pathway    A series of molecular signals that proceeds with an activated receptor promoting the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. The GTP-bound activated alpha-G-protein then dissociates from the beta- and gamma-subunits to further transmit the signal within the cell. The pathway begins with receptor-ligand interaction, or for basal GPCR signaling the pathway begins with the receptor activating its G protein in the absence of an agonist, and ends with regulation of a downstream cellular process, e.g. transcription. The pathway can start from the plasma membrane, Golgi or nuclear membrane (PMID:24568158 and PMID:16902576).
    GO:0071407    cellular response to organic cyclic compound    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic cyclic compound stimulus.
    GO:0007200    phospholipase C-activating G-protein coupled receptor signaling pathway    The series of molecular signals generated as a consequence of a G-protein coupled receptor binding to its physiological ligand, where the pathway proceeds with activation of phospholipase C (PLC) and a subsequent increase in the concentration of inositol trisphosphate (IP3) and diacylglycerol (DAG).
    GO:0030168    platelet activation    A series of progressive, overlapping events triggered by exposure of the platelets to subendothelial tissue. These events include shape change, adhesiveness, aggregation, and release reactions. When carried through to completion, these events lead to the formation of a stable hemostatic plug.
    GO:0043270    positive regulation of ion transport    Any process that activates or increases the frequency, rate or extent of the directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0090075    relaxation of muscle    A process in which the extent of muscle contraction is reduced. Muscle relaxation can involve a number of processes including the removal of calcium from the cytoplasm to the sarcoplasmic reticulum lumen through the action of Ca2+ ATPases. In some muscles, calcium-independent pathways also play a role in muscle relaxation by decreasing the phosphorylation state of myosin light chain.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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