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(-) Description

Title :  CRYSTAL STRUCTURE OF NATIVE BIRCH POLLEN ALLERGEN BET V 1 ISOFORM J
 
Authors :  S. Kofler, H. Brandstetter
Date :  21 Nov 11  (Deposition) - 30 May 12  (Release) - 15 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.16
Chains :  Asym./Biol. Unit :  A
Keywords :  Allergen, Pr-10 Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Kofler, C. Asam, U. Eckhard, M. Wallner, F. Ferreira, H. Brandstetter
Crystallographically Mapped Ligand Binding Differs In High And Low Ige Binding Isoforms Of Birch Pollen Allergen Bet V 1.
J. Mol. Biol. V. 422 109 2012
PubMed-ID: 22634284  |  Reference-DOI: 10.1016/J.JMB.2012.05.016

(-) Compounds

Molecule 1 - MAJOR POLLEN ALLERGEN BET V 1-J
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorPET-28B
    Expression System Vector TypePLASMID
    Organism CommonEUROPEAN WHITE BIRCH
    Organism ScientificBETULA PENDULA
    Organism Taxid3505
    SynonymALLERGEN BET V I-J, ALLERGEN=BET V 1-J

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 13)

Asymmetric/Biological Unit (4, 13)
No.NameCountTypeFull Name
1MPD3Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
3SO48Ligand/IonSULFATE ION
4TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:69 , TYR A:83 , MPD A:1161 , HOH A:2146BINDING SITE FOR RESIDUE MPD A1160
02AC2SOFTWAREPHE A:58 , PHE A:64 , VAL A:67 , PRO A:90 , ILE A:98 , ALA A:135 , MET A:139 , MPD A:1160 , HOH A:2176 , HOH A:2202BINDING SITE FOR RESIDUE MPD A1161
03AC3SOFTWAREGLY A:26 , ASP A:27 , PHE A:30 , VAL A:41 , LYS A:54 , ASP A:69 , TYR A:81 , TRS A:1170 , MRD A:1171 , HOH A:2034BINDING SITE FOR RESIDUE MPD A1162
04AC4SOFTWARETHR A:7 , GLU A:8 , LYS A:32 , TYR A:150 , HOH A:2193BINDING SITE FOR RESIDUE SO4 A1163
05AC5SOFTWAREALA A:9 , THR A:10 , GLU A:141 , ARG A:145BINDING SITE FOR RESIDUE SO4 A1164
06AC6SOFTWARELYS A:134 , GLU A:138BINDING SITE FOR RESIDUE SO4 A1165
07AC7SOFTWAREARG A:145 , GLU A:148 , SER A:149 , HOH A:2203BINDING SITE FOR RESIDUE SO4 A1166
08AC8SOFTWARESER A:149 , TYR A:150 , HIS A:154BINDING SITE FOR RESIDUE SO4 A1167
09AC9SOFTWAREHIS A:76 , HOH A:2117BINDING SITE FOR RESIDUE SO4 A1168
10BC1SOFTWAREGLU A:45BINDING SITE FOR RESIDUE SO4 A1169
11BC2SOFTWAREILE A:23 , GLY A:48 , LYS A:54 , TYR A:81 , MPD A:1162 , HOH A:2036 , HOH A:2118 , HOH A:2204BINDING SITE FOR RESIDUE TRS A1170
12BC3SOFTWAREPHE A:22 , TYR A:83 , ILE A:102 , MPD A:1162 , HOH A:2205BINDING SITE FOR RESIDUE MRD A1171
13BC4SOFTWAREHOH A:2206BINDING SITE FOR RESIDUE SO4 A1172

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4A8U)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4A8U)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4A8U)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PATHOGENESIS_BETVIPS00451 Pathogenesis-related proteins Bet v I family signature.BEV1J_BETPN89-121  1A:88-120

(-) Exons   (0, 0)

(no "Exon" information available for 4A8U)

(-) 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:159
 aligned with BEV1J_BETPN | P43183 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:159
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151         
          BEV1J_BETPN     2 GVFNYETEATSVIPAARLFKAFILDGDNLFPKVAPQAISSVENIEGNGGPGTIKKISFPEGFPFKYVKDRVDEVDHTNFKYSYSVIEGGPVGDTLEKISNEIKIVATPNGGSILKINNKYHTKGDHEVKAEQIKASKEMGETLLRAVESYLLAHSDAYN 160
               SCOP domains d4a8ua_ A: automated matches                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..hhhhhhhhhh.hhhhhhhhhh.....eeeeee.......eeeee........eeeeeeeeee....eeeeeeeee......eeeeeeeeeeee.....eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------PATHOGENESIS_BETVI  PDB: A:88-120--------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a8u A   1 GVFNYETEATSVIPAARLFKAFILDGDNLFPKVAPQAISSVENIEGNGGPGTIKKISFPEGFPFKYVKDRVDEVDHTNFKYSYSVIEGGPVGDTLEKISNEIKIVATPNGGSILKINNKYHTKGDHEVKAEQIKASKEMGETLLRAVESYLLAHSDAYN 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         

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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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4A8U)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4A8U)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (BEV1J_BETPN | P43183)
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
    GO:0009607    response to biotic stimulus    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        BEV1J_BETPN | P431834a8v

(-) Related Entries Specified in the PDB File

4a8v CRYSTAL STRUCTURE OF BIRCH POLLEN ALLERGEN BET V 1 ISOFORM J IN COMPLEX WITH 8-ANILINONAPHTHALENE-1- SULFONATE (ANS)