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(-) Description

Title :  1.5 ANGSTROM RESOLUTION STRUCTURE OF GLYCOSYLATED FCGAMMARIIA (LOW-RESPONDER POLYMORPHISM)
 
Authors :  P. A. Ramsland, W. Farrugia, P. M. Hogarth
Date :  11 May 11  (Deposition) - 31 Aug 11  (Release) - 21 Sep 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Fc Receptor, Cd32, Immunoglobulin Superfamily, Low Responder Polymorphism, Cell Membrane, Glycoprotein, Igg-Binding Protein, Immunoglobulin Domain, Membrane, Phosphoprotein, Receptor, Transmembrane, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. A. Ramsland, W. Farrugia, T. M. Bradford, C. T. Sardjono, S. Esparon H. M. Trist, M. S. Powell, P. S. Tan, A. C. Cendron, B. D. Wines, A. M. Scott, P. M. Hogarth
Structural Basis For Fc{Gamma}Riia Recognition Of Human Igg And Formation Of Inflammatory Signaling Complexes.
J. Immunol. V. 187 3208 2011
PubMed-ID: 21856937  |  Reference-DOI: 10.4049/JIMMUNOL.1101467

(-) Compounds

Molecule 1 - LOW AFFINITY IMMUNOGLOBULIN GAMMA FC REGION RECEPTOR II-A
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF21
    Expression System Common: FALL ARMYWORM
    Expression System Plasmid: PVL1392
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: EXTRACELLULAR DOMAIN, RESIDUES 37-206
    Gene: CD32, FCG2, FCGR2A, FCGR2A1, IGFR2
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: IGG FC RECEPTOR II-A, CDW32, FC-GAMMA RII-A, FC-GAMMA-RIIA, FCRII-A
    Tissue: BLOOD

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:50 , THR A:51 , ASN A:145 , SER A:147 , HIS A:148 , HOH A:895 , HOH A:898 , HOH A:955 , HOH A:1035BINDING SITE FOR RESIDUE NAG A 200
2AC2SOFTWAREASP A:23 , SER A:24 , ASN A:45 , ARG A:109 , HIS A:111 , ASP A:115 , HOH A:800 , HOH A:807 , HOH A:811 , HOH A:915BINDING SITE FOR RESIDUE GOL A 600

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:29 -A:71
2A:110 -A:154

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:13 -Pro A:14

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (3, 3)

Asymmetric/Biological Unit (3, 3)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_054857Q63RFCG2A_HUMANPolymorphism9427398AQ30R
2UniProtVAR_054858M140VFCG2A_HUMANPolymorphism4986941AM107V
3UniProtVAR_003955H167RFCG2A_HUMANPolymorphism1801274AH134R
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3RY4)

(-) Exons   (2, 2)

Asymmetric/Biological Unit (2, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002714501aENSE00001170978chr1:161475220-161475342123FCG2A_HUMAN1-29290--
1.1gENST000002714501gENSE00000958752chr1:161475777-16147579721FCG2A_HUMAN29-3680--
1.1jENST000002714501jENSE00001651726chr1:161476124-161476381258FCG2A_HUMAN36-122871A:4-8986
1.3aENST000002714503aENSE00001614571chr1:161479610-161479864255FCG2A_HUMAN122-207861A:89-17385
1.4aENST000002714504aENSE00000958755chr1:161480624-161480746123FCG2A_HUMAN207-248420--
1.6aENST000002714506aENSE00001643425chr1:161483685-16148372238FCG2A_HUMAN248-260130--
1.8hENST000002714508hENSE00001170974chr1:161487765-1614893581594FCG2A_HUMAN261-317570--

(-) 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:170
 aligned with FCG2A_HUMAN | P12318 from UniProtKB/Swiss-Prot  Length:317

    Alignment length:170
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206
          FCG2A_HUMAN    37 APPKAVLKLEPPWINVLQEDSVTLTCQGARSPESDSIQWFHNGNLIPTHTQPSYRFKANNNDSGEYTCQTGQTSLSDPVHLTVLSEWLVLQTPHLEFQEGETIMLRCHSWKDKPLVKVTFFQNGKSQKFSHLDPTFSIPQANHSHSGDYHCTGNIGYTLFSSKPVTITVQ 206
               SCOP domains d3ry4a1 A:4-88 automated matches                                                     d3ry4a2 A:89-173 automated matches                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee....eee...eeeeeee.........eeeee..ee.......eeeee.hhhhheeeeeee........eeeeee...eeee....ee.....eeeeeee.hhh.eeeeeeee..eeeeee....eeee...hhhhheeeeeeeee..eeee...eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------R----------------------------------------------------------------------------V--------------------------R--------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1j  PDB: A:4-89 UniProt: 36-122 [INCOMPLETE]                                   ------------------------------------------------------------------------------------ Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------Exon 1.3a  PDB: A:89-173 UniProt: 122-207 [INCOMPLETE]                                Transcript 1 (2)
                 3ry4 A   4 APPKAVLKLEPPWINVLQEDSVTLTCQGARSPESDSIQWFHNGNLIPTHTQPSYRFKANNNDSGEYTCQTGQTSLSDPVHLTVLFEWLVLQTPHLEFQEGETIMLRCHSWKDKPLVKVTFFQNGKSQKFSHLDPTFSIPQANHSHSGDYHCTGNIGYTLFSSKPVTITVQ 173
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173
   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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RY4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3RY4)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FCG2A_HUMAN | P12318)
molecular function
    GO:0019864    IgG binding    Interacting selectively and non-covalently with an immunoglobulin of an IgG isotype.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0038096    Fc-gamma receptor signaling pathway involved in phagocytosis    An Fc-gamma receptor signaling pathway that contributes to the endocytic engulfment of external particulate material by phagocytes.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
cellular component
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        FCG2A_HUMAN | P12318: 1fcg 1h9v 3d5o 3ry5 3ry6

(-) Related Entries Specified in the PDB File

3ry5 3ry6