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(-) Description

Title :  HUMAN HIGH AFFINITY FC RECEPTOR FC(EPSILON)RI(ALPHA), HEXAGONAL CRYSTAL FORM 1
 
Authors :  S. C. Garman, S. Sechi, J. P. Kinet, T. S. Jardetzky
Date :  20 May 01  (Deposition) - 29 Aug 01  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Immune System, Fc Receptor, Ige Receptor, Glycoprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. C. Garman, S. Sechi, J. P. Kinet, T. S. Jardetzky
The Analysis Of The Human High Affinity Ige Receptor Fc Epsilon Ri Alpha From Multiple Crystal Forms.
J. Mol. Biol. V. 311 1049 2001
PubMed-ID: 11531339  |  Reference-DOI: 10.1006/JMBI.2001.4929

(-) Compounds

Molecule 1 - HIGH AFFINITY IMMUNOGLOBULIN EPSILON RECEPTOR ALPHA- SUBUNIT
    ChainsA
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System CommonFALL ARMYWORM
    Expression System PlasmidPVL1392
    Expression System StrainSF9
    Expression System Taxid7108
    Expression System Vector TypeBACULOVIRUS
    FragmentEXTRACELLULAR FRAGMENT
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsGLYCOSYLATED PROTEIN
    SynonymFC(EPSILON)RI(ALPHA)

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric/Biological Unit (4, 12)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2FUC1Ligand/IonALPHA-L-FUCOSE
3MAN2Ligand/IonALPHA-D-MANNOSE
4NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:19 , ASN A:21 , VAL A:56 , NAG A:222BINDING SITE FOR RESIDUE NAG A 221
02AC2SOFTWARENAG A:221BINDING SITE FOR RESIDUE NAG A 222
03AC3SOFTWAREASN A:42 , PHE A:60 , GLU A:61 , SER A:63 , NAG A:243BINDING SITE FOR RESIDUE NAG A 242
04AC4SOFTWAREPHE A:60 , GLU A:61 , SER A:63 , GLU A:82 , NAG A:242 , BMA A:244BINDING SITE FOR RESIDUE NAG A 243
05AC5SOFTWAREPHE A:60 , NAG A:243 , MAN A:245 , MAN A:246BINDING SITE FOR RESIDUE BMA A 244
06AC6SOFTWAREBMA A:244BINDING SITE FOR RESIDUE MAN A 245
07AC7SOFTWARESER A:85 , BMA A:244BINDING SITE FOR RESIDUE MAN A 246
08AC8SOFTWAREGLY A:100 , ASP A:114 , ASN A:140 , TRP A:156 , NAG A:341 , FUC A:342BINDING SITE FOR RESIDUE NAG A 340
09AC9SOFTWAREASP A:114 , TYR A:116 , NAG A:340 , FUC A:342BINDING SITE FOR RESIDUE NAG A 341
10BC1SOFTWARENAG A:340 , NAG A:341BINDING SITE FOR RESIDUE FUC A 342
11BC2SOFTWARETHR A:148 , ASN A:166 , NAG A:367BINDING SITE FOR RESIDUE NAG A 366
12BC3SOFTWARENAG A:366BINDING SITE FOR RESIDUE NAG A 367

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:26 -A:68
2A:107 -A:151

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asn A:10 -Pro A:11

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 2)

Asymmetric/Biological Unit (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_020091K84RFCERA_HUMANPolymorphism2298804AK59R
2UniProtVAR_020092S101NFCERA_HUMANPolymorphism2298805AS76N

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1J87)

(-) Exons   (3, 3)

Asymmetric/Biological Unit (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003681151ENSE00001277214chr1:159259504-15925954340FCERA_HUMAN-00--
1.2aENST000003681152aENSE00001277230chr1:159272096-159272209114FCERA_HUMAN1-19190--
1.3ENST000003681153ENSE00001067917chr1:159272644-15927266421FCERA_HUMAN19-2681A:1-11
1.4aENST000003681154aENSE00001067919chr1:159273718-159273972255FCERA_HUMAN26-111861A:1-86 (gaps)86
1.5ENST000003681155ENSE00001277186chr1:159275778-159276035258FCERA_HUMAN111-197871A:86-17186
1.6bENST000003681156bENSE00001446352chr1:159277538-159278014477FCERA_HUMAN197-257610--

(-) 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:168
 aligned with FCERA_HUMAN | P12319 from UniProtKB/Swiss-Prot  Length:257

    Alignment length:171
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195 
          FCERA_HUMAN    26 VPQKPKVSLNPPWNRIFKGENVTLTCNGNNFFEVSSTKWFHNGSLSEETNSSLNIVNAKFEDSGEYKCQHQQVNESEPVYLEVFSDWLLLQASAEVVMEGQPLFLRCHGWRNWDVYKVIYYKDGEALKYWYENHNISITNATVEDSGTYYCTGKVWQLDYESEPLNITVIK 196
               SCOP domains d1j87a1 A:1-85 IgE high affinity    receptor alpha subunit                           d1j87a2 A:86-171 IgE high affinity receptor alpha subunit                              SCOP domains
               CATH domains ---1j87A01 A:4-84 Immunoglobulin   s                                                1j87A02 A:85-171 Immunoglobulins                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee....eee....eeeee......---.eeeee..ee......eeee...hhhhheeeeeee........eeeeee...eeeee...eee...eeeeeeee.hhh..eeeeeee..ee....eee..eeeee......eeeeeeeee..eeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------R----------------N----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1------------------------------------------------------------------------------------Exon 1.5  PDB: A:86-171 UniProt: 111-197 [INCOMPLETE]                                  Transcript 1 (1)
           Transcript 1 (2) Exon 1.4a  PDB: A:1-86 (gaps) UniProt: 26-111                                         ------------------------------------------------------------------------------------- Transcript 1 (2)
                 1j87 A   1 VPQKPKVSLNPPWNRIFKGENVTLTCNGNNFF---STKWFHNGSLSEETNSSLNIVNAKFEDSGEYKCQHQQVNESEPVYLEVFSDWLLLQASAEVVMEGQPLFLRCHGWRNWDVYKVIYYKDGEALKYWYENHNISITNATVEDSGTYYCTGKVWQLDYESEPLNITVCK 171
                                    10        20        30 |   |  40        50        60        70        80        90       100       110       120       130       140       150       160       170 
                                                          32  36                                                                                                                                       

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J87)

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FCERA_HUMAN | P12319)
molecular function
    GO:0019863    IgE binding    Interacting selectively and non-covalently with an immunoglobulin of the IgE isotype.
    GO:0019767    IgE receptor activity    Combining with an immunoglobulin of the IgE isotype via the Fc region, and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity.
biological process
    GO:0038095    Fc-epsilon receptor signaling pathway    A series of molecular signals initiated by the binding of the Fc portion of immunoglobulin E (IgE) to an Fc-epsilon receptor on the surface of a signal-receiving cell, and ending with regulation of a downstream cellular process, e.g. transcription. The Fc portion of an immunoglobulin is its C-terminal constant region.
    GO:0007257    activation of JUN kinase activity    The initiation of the activity of the inactive enzyme JUN kinase (JNK).
    GO:0000187    activation of MAPK activity    The initiation of the activity of the inactive enzyme MAP kinase (MAPK).
    GO:0007166    cell surface receptor signaling pathway    A series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0019370    leukotriene biosynthetic process    The chemical reactions and pathways resulting in the formation of leukotriene, a pharmacologically active substance derived from a polyunsaturated fatty acid, such as arachidonic acid.
    GO:0050850    positive regulation of calcium-mediated signaling    Any process that activates or increases the frequency, rate or extent of calcium-mediated signaling.
    GO:0045425    positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of granulocyte macrophage colony-stimulating factor.
    GO:0045401    positive regulation of interleukin-3 biosynthetic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interleukin-3.
    GO:0043306    positive regulation of mast cell degranulation    Any process that activates or increases the frequency, rate or extent of mast cell degranulation.
    GO:0050731    positive regulation of peptidyl-tyrosine phosphorylation    Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-tyrosine.
    GO:0001812    positive regulation of type I hypersensitivity    Any process that activates or increases the frequency, rate or extent of type I hypersensitivity, a type of inflammatory response.
    GO:0001820    serotonin secretion    The regulated release of serotonin by a cell. Serotonin (5-hydroxytryptamine, or 5-HT) is a monoamine synthesised in serotonergic neurons in the central nervous system, enterochromaffin cells in the gastrointestinal tract and some immune system cells.
    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:0009897    external side of plasma membrane    The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
    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:0005887    integral component of plasma membrane    The component of the plasma 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:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
    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
        FCERA_HUMAN | P123191als 1alt 1f2q 1f6a 1j86 1j88 1j89 1rpq 2y7q

(-) Related Entries Specified in the PDB File

1f2q MONOCLINIC CRYSTAL FORM 1
1f6a COMPLEX WITH IGE-FC C(EPSILON)3-4
1j86 MONOCLINIC CRYSTAL FORM 2
1j88 TETRAGONAL CRYSTAL FORM 1
1j89 TETRAGONAL CRYSTAL FORM 2