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(-) Description

Title :  2.5 ANGSTROM A2A ADENOSINE RECEPTOR STRUCTURE WITH MR PHASING USING XFEL DATA
 
Authors :  A. Batyuk, L. Galli, A. Ishchenko, G. W. Han, C. Gati, P. Popov, M. -Y. Lee B. Stauch, T. A. White, A. Barty, A. Aquila, M. S. Hunter, M. Liang, S. Bo M. Pu, Z. -J. Liu, G. Nelson, D. James, C. Li, Y. Zhao, J. C. H. Spence, W. L P. Fromme, V. Katritch, U. Weierstall, R. C. Stevens, V. Cherezov, Gpc (Gpcr)
Date :  18 May 16  (Deposition) - 21 Sep 16  (Release) - 12 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  A2A Adenosine Receptor, Membrane Protein, Gpcr, Structural Genomics, Psi-Biology, Gpcr Network (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Batyuk, L. Galli, A. Ishchenko, G. W. Han, C. Gati, P. A. Popov, M. Y. Lee, B. Stauch, T. A. White, A. Barty, A. Aquila, M. S. Hunter, M. Liang, S. Boutet, M. Pu, Z. J. Liu, G. Nelson, D. James, C. Li, Y. Zhao, J. C. Spence, W. Liu, P. Fromme, V. Katritch, U. Weierstall, R. C. Stevens, V. Cherezov
Native Phasing Of X-Ray Free-Electron Laser Data For A G Protein-Coupled Receptor.
Sci Adv V. 2 00292 2016
PubMed-ID: 27679816  |  Reference-DOI: 10.1126/SCIADV.1600292

(-) Compounds

Molecule 1 - ADENOSINE RECEPTOR A2A/SOLUBLE CYTOCHROME B562 CHIMERA
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Gene: ADORA2A, ADORA2, CYBC
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS, ESCHERICHIA COLI
    Organism Taxid: 9606, 562
    Synonym: CYTOCHROME B-562

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 23)

Asymmetric/Biological Unit (6, 23)
No.NameCountTypeFull Name
1CLR3Ligand/IonCHOLESTEROL
2NA1Ligand/IonSODIUM ION
3OLA8Ligand/IonOLEIC ACID
4OLB1Ligand/Ion(2S)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE
5OLC9Ligand/Ion(2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE
6ZMA1Ligand/Ion4-{2-[(7-AMINO-2-FURAN-2-YL[1,2,4]TRIAZOLO[1,5-A][1,3,5]TRIAZIN-5-YL)AMINO]ETHYL}PHENOL

(-) Sites  (21, 21)

Asymmetric Unit (21, 21)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:85 , PHE A:168 , GLU A:169 , TRP A:246 , LEU A:249 , HIS A:250 , ASN A:253 , LEU A:267 , MET A:270 , HOH A:1325 , HOH A:1334 , HOH A:1345binding site for residue ZMA A 1201
02AC2SOFTWAREASP A:52 , SER A:91 , HOH A:1327 , HOH A:1340 , HOH A:1355binding site for residue NA A 1202
03AC3SOFTWAREPHE A:255 , PHE A:258 , CLR A:1205 , OLC A:1207 , HOH A:1311binding site for residue CLR A 1203
04AC4SOFTWARECYS A:262 , SER A:263 , OLC A:1221 , HOH A:1301binding site for residue CLR A 1204
05AC5SOFTWAREALA A:72 , ALA A:73 , ILE A:80 , CLR A:1203binding site for residue CLR A 1205
06AC6SOFTWARETHR A:65 , PHE A:70 , CYS A:71 , OLC A:1221binding site for residue OLB A 1206
07AC7SOFTWAREPHE A:258 , CLR A:1203binding site for residue OLC A 1207
08AC8SOFTWARECYS A:28 , VAL A:46 , ARG A:205 , OLC A:1209binding site for residue OLC A 1208
09AC9SOFTWARETYR A:43 , ILE A:125 , TRP A:129 , OLC A:1208binding site for residue OLC A 1209
10AD1SOFTWAREHIS A:75 , MET A:140 , LEU A:141 , TYR A:179binding site for residue OLC A 1210
11AD2SOFTWAREPRO A:2 , SER A:6 , OLA A:1214 , OLA A:1215binding site for residue OLC A 1212
12AD3SOFTWARESER A:7 , LEU A:19 , LEU A:22binding site for residue OLA A 1213
13AD4SOFTWAREOLC A:1212binding site for residue OLA A 1214
14AD5SOFTWARETYR A:290 , OLC A:1212 , HOH A:1302binding site for residue OLA A 1215
15AD6SOFTWAREALA A:97 , ILE A:124binding site for residue OLA A 1216
16AD7SOFTWAREILE A:10 , LEU A:14 , OLC A:1220binding site for residue OLA A 1217
17AD8SOFTWARETHR A:11binding site for residue OLA A 1218
18AD9SOFTWARETHR A:65 , THR A:68 , OLA A:1217 , OLC A:1221binding site for residue OLC A 1220
19AE1SOFTWAREPHE A:255 , CYS A:262 , CLR A:1204 , OLB A:1206 , OLC A:1220 , HOH A:1301binding site for residue OLC A 1221
20AE2SOFTWAREHIS A:75 , GLY A:76binding site for residue OLC A 1222
21AE3SOFTWARELEU A:241binding site for residue OLA A 1223

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:71 -A:159
2A:74 -A:146
3A:77 -A:166
4A:259 -A:262

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5K2B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5K2B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5K2B)

(-) Exons   (0, 0)

(no "Exon" information available for 5K2B)

(-) 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:394
                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhh.....eee.hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5k2b A   -2 DGAPPIMGSSVYITVELAIAVLAILGNVLVCWAVWLNSNLQNVTNYFVVSLAAADIAVGVLAIPFAITISTGFCAACHGCLFIACFVLVLTQSSIFSLLAIAIDRYIAIRIPLRYNGLVTGTRAKGIIAICWVLSFAIGLTPMLGWNNCGQPKEGKNHSQGCGEGQVACLFEDVVPMNYMVYFNFFACVLVPLLLMLGVYLRIFLAARRQLADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQKAEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRNAYIQKYLERARSTLQKEVHAAKSLAIIVGLFALCWLPLHIINCFTFFCPDCSHAPLWLMYLAIVLSHTNSVVNPFIYAYRIREFRQTFRKIIRSHVL  308
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207||    1009      1019      1029      1039   || 1062      1072      1082      1092      1102   ||  224       234       244       254       264       274       284       294       304    
                                                                                                                                                                                                                                            208|                                      1043|                                             1106|                                                                                         
                                                                                                                                                                                                                                            1001                                       1057                                               219
   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 5K2B)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5K2B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5K2B)

(-) Gene Ontology  (33, 33)

Asymmetric/Biological Unit(hide GO term definitions)

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  C562_ECOLX | P0ABE7
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 Related Entries

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

UniProtKB/Swiss-Prot
        AA2AR_HUMAN | P29274: 1mmh 1upe 2ydo 2ydv 3eml 3pwh 3qak 3rey 3rfm 3uza 3uzc 3vg9 3vga 4eiy 4ug2 4uhr 5g53 5iu4 5iu7 5iu8 5iua 5iub 5jtb 5k2a 5k2c 5k2d 5uig 5uvi
        C562_ECOLX | P0ABE7: 1apc 1lm3 1m6t 1qpu 1qq3 256b 2bc5 2qla 3c62 3c63 3de8 3de9 3foo 3fop 3hni 3hnj 3hnk 3hnl 3iq5 3iq6 3l1m 3m15 3m4b 3m4c 3m79 3nmi 3nmj 3nmk 3tol 3tom 3u8p 4ea3 4eiy 4iaq 4iar 4ib4 4je9 4jea 4jeb 4jkv 4l6r 4n6h 4nc3 4ntj 4o9r 4or2 4pxz 4py0 4qim 4qin 4rwa 4rwd 4u9d 4u9e 4yay 4z34 4z35 4z36 4zud 5awi 5bu7 5dhg 5dhh 5iu4 5iu7 5iu8 5iua 5iub 5jtb 5k2a 5k2c 5k2d 5l31 5l32 5l7d 5l7i 5ndd 5ndz 5nj6 5tvn 5uen 5uig 5unf 5ung 5unh 5uvi

(-) Related Entries Specified in the PDB File

5k2a 5k2c 5k2d