3VGA Signaling Protein date Aug 04, 2011
title Crystal Structure Of Human Adenosine A2a Receptor With An Al Inverse-Agonist Antibody At 3.1 A Resolution
authors T.Hino, T.Arakawa, H.Iwanari, T.Yurugi-Kobayashi, C.Ikeda-Suno, Y Nakura, O.Kusano-Arai, S.Weyand, T.Shimamura, N.Nomura, A.D.Came T.Kobayashi, T.Hamakubo, S.Iwata, T.Murata
compound source
Molecule: Adenosine Receptor A2a
Chain: A
Fragment: Unp Residues 1-316
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Adora2a, Adora2
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic9k

Molecule: Antibody Fab Fragment Light Chain
Chain: B

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090

Molecule: Antibody Fab Fragment Heavy Chain
Chain: C

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
symmetry Space Group: C 1 2 1
R_factor 0.196 R_Free 0.263
length a length b length c angle alpha angle beta angle gamma
120.313 89.766 110.682 90.00 96.14 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand ZMA BindingDB enzyme

Primary referenceG-protein-coupled receptor inactivation by an allosteric inverse-agonist antibody., Hino T, Arakawa T, Iwanari H, Yurugi-Kobayashi T, Ikeda-Suno C, Nakada-Nakura Y, Kusano-Arai O, Weyand S, Shimamura T, Nomura N, Cameron AD, Kobayashi T, Hamakubo T, Iwata S, Murata T, Nature. 2012 Jan 29;482(7384):237-40. doi: 10.1038/nature10750. PMID:22286059
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (245 Kb) [Save to disk]
  • Biological Unit Coordinates (3vga.pdb1.gz) 240 Kb
  • LPC: Ligand-Protein Contacts for 3VGA
  • CSU: Contacts of Structural Units for 3VGA
  • Structure Factors (576 Kb)
  • Retrieve 3VGA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VGA from S2C, [Save to disk]
  • Re-refined 3vga structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VGA in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3VGA
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3VGA, from MSDmotif at EBI
  • Fold representative 3vga from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vga_A] [3vga_C] [3vga_B] [3vga]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3VGA: [IG_like] [IGv ] by SMART
  • Other resources with information on 3VGA
  • Community annotation for 3VGA at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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