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(-) Description

Title :  THE HUMAN P2Y1 RECEPTOR IN COMPLEX WITH BPTU
 
Authors :  D. Zhang, Z. Gao, K. Jacobson, G. W. Han, R. Stevens, Q. Zhao, B. Wu
Date :  16 Jan 15  (Deposition) - 01 Apr 15  (Release) - 29 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Human P2Y1 Receptor, G Protein Coupled Receptor, Platelet Activation, Membrane Protein, Inhibitor Complex, Transport Protein-Inhibitor Complex, Psi-Biology (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Zhang, Z. G. Gao, K. Zhang, E. Kiselev, S. Crane, J. Wang, S. Paoletta C. Yi, L. Ma, W. Zhang, G. W. Han, H. Liu, V. Cherezov, V. Katritch, H. Jiang, R. C. Stevens, K. A. Jacobson, Q. Zhao, B. Wu
Two Disparate Ligand-Binding Sites In The Human P2Y1 Receptor
Nature V. 520 317 2015
PubMed-ID: 25822790  |  Reference-DOI: 10.1038/NATURE14287

(-) Compounds

Molecule 1 - P2Y PURINOCEPTOR 1, RUBREDOXIN, P2Y PURINOCEPTOR 1
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA
    Expression System Taxid: 7106
    Expression System Vector Type: BACULOVIRUS
    Gene: P2RY1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS, CLOSTRIDIUM PASTEURIANUM
    Organism Taxid: 9606, 1501
    Other Details: CHIMERA PROTEIN OF P2Y PURINOCEPTOR 1 (P2RY1_HUMA) WITH RUBREDOXIN (RUBR_CLOPA) INSERTED INTO ICL3 DOMAIN BETWEEN RESIDUES 247LYS AND 253PRO, AND REPLACED RESIDUES 248ASN TO 252SER.
    Synonym: P2Y1, ATP RECEPTOR, PURINERGIC RECEPTOR

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 15)

Asymmetric/Biological Unit (6, 15)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
2BUR1Ligand/Ion1-[2-(2-TERT-BUTYLPHENOXY)PYRIDIN-3-YL]-3-[4-(TRIFLUOROMETHOXY)PHENYL]UREA
3CLR1Ligand/IonCHOLESTEROL
4OLC8Ligand/Ion(2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE
5Y013Ligand/IonCHOLESTEROL HEMISUCCINATE
6ZN1Ligand/IonZINC ION

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPHE A:62 , PHE A:66 , LEU A:102 , THR A:103 , PRO A:105 , ALA A:106 , MET A:123 , GLN A:127 , Y01 A:1105 , OLC A:1107 , OLC A:1110 , OLC A:1113 , 1PE A:1114binding site for residue BUR A 1101
02AC2SOFTWAREPRO A:185 , TYR A:189 , SER A:213 , TYR A:217 , Y01 A:1103binding site for residue CLR A 1102
03AC3SOFTWAREILE A:216 , CYS A:220 , ALA A:270 , MET A:279 , ARG A:301 , THR A:305 , CLR A:1102 , 1PE A:1114binding site for residue Y01 A 1103
04AC4SOFTWARETYR A:89 , CYS A:144 , HIS A:148 , ALA A:224 , LEU A:232 , TYR A:246 , LEU A:266binding site for residue Y01 A 1104
05AC5SOFTWAREPHE A:62 , ILE A:108 , PHE A:109 , PHE A:112 , ASN A:113 , ARG A:301 , BUR A:1101 , OLC A:1113 , 1PE A:1114binding site for residue Y01 A 1105
06AC6SOFTWAREARG A:212 , PHE A:215 , ILE A:216 , ASP A:289 , OLC A:1112binding site for residue OLC A 1106
07AC7SOFTWAREPHE A:109 , SER A:184 , PHE A:188 , TYR A:189 , TYR A:210 , SER A:213 , ARG A:301 , BUR A:1101 , 1PE A:1114binding site for residue OLC A 1107
08AC8SOFTWAREASP A:121 , PHE A:129 , OLC A:1110 , HOH A:1206binding site for residue OLC A 1108
09AC9SOFTWARELYS A:46 , PHE A:49 , TYR A:53 , PHE A:112 , CYS A:318 , OLC A:1111binding site for residue OLC A 1109
10AD1SOFTWAREILE A:118 , PHE A:119 , ASP A:121 , MET A:123 , LYS A:125 , SER A:184 , LEU A:187 , PHE A:188 , BUR A:1101 , OLC A:1108binding site for residue OLC A 1110
11AD2SOFTWAREPHE A:51 , TYR A:52 , PRO A:55 , TYR A:111 , PHE A:112 , OLC A:1109binding site for residue OLC A 1111
12AD3SOFTWAREPHE A:226 , THR A:281 , MET A:282 , ARG A:285 , OLC A:1106binding site for residue OLC A 1112
13AD4SOFTWARETHR A:267 , ALA A:270 , ARG A:301 , THR A:305 , VAL A:308 , BUR A:1101 , Y01 A:1105 , 1PE A:1114 , HOH A:1217binding site for residue OLC A 1113
14AD5SOFTWAREARG A:301 , BUR A:1101 , Y01 A:1103 , Y01 A:1105 , OLC A:1107 , OLC A:1113binding site for residue 1PE A 1114
15AD6SOFTWARECYS A:1006 , CYS A:1009 , CYS A:1039 , CYS A:1042binding site for residue ZN A 1115

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:42 -A:296
2A:124 -A:202

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:81 -Pro A:82

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XNV)

(-) 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:340
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeee.....eeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.....ee...............hhhhh.......hhh.eee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xnv A   39 SFKCALTKTGFQFYYLPAVYILVFIIGFLGNSVAIWMFVFHMKPWSGISVYMFNLALADFLYVLTLPALIFYYFNKTDWIFGDAMCKLQRFIFHVNLYGSILFLTCISAHRYSGVVYPKSLGRLKKKNAICISVLVWLIVVVAISPILFYSGTGVRKNKTITCYDTTSDEYLRSYFIYSMCTTVAMFCVPLVLILGCYGLIVRALIYKMKKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIVCPLCGVGKDQFEEVEEPLRRKSIYLVIIVLTVFAVSYIPFHVMKTMNLRARLDFQTPAMCAFNDRVYATYQVTRGLASLNSCVNPILYFLAGDTFRRR  334
                                    48        58        68        78        88        98       108       118       128       138       148       159       169       179       189       199       209       219       229       239      1002      1012      1022      1032||    1046       254       264       274       284       294       304       314       324       334
                                                                                                                                               156|                                                                                      247|                            1033|            1054|                                                                                 
                                                                                                                                                158                                                                                      1001                             1038              253
   Legend:   → Mismatch (orange background)
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  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 4XNV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (60, 60)

Asymmetric/Biological Unit(hide GO term definitions)

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  4xnv
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  P2RY1_HUMAN | P47900
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  RUBR_CLOPA | P00268
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 Related Entries

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

UniProtKB/Swiss-Prot
        P2RY1_HUMAN | P47900: 1y36 4xnw
        RUBR_CLOPA | P00268: 1b13 1b2j 1b2o 1be7 1bfy 1c09 1fhh 1fhm 1irn 1iro 1r0f 1r0g 1r0h 1r0i 1r0j 1smm 1smu 1smw 1t9o 1t9p 1t9q 2pve 4mbs 4rxn 4xnw 5rxn 5uiw 5vbl

(-) Related Entries Specified in the PDB File

4xnw RELATED ID: GPCR-86 RELATED DB: TARGETTRACK