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(-) Description

Title :  CRYSTAL STRUCTURE OF MAJOR BIRCH POLLEN ALLERGEN BET V 1 A F30V MUTANT IN COMPLEX WITH DEOXYCHOLATE.
 
Authors :  S. Kofler, H. Brandstetter
Date :  18 Nov 11  (Deposition) - 30 May 12  (Release) - 15 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
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-A
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET-28B
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: EUROPEAN WHITE BIRCH
    Organism Scientific: BETULA PENDULA
    Organism Taxid: 3505
    Synonym: BET V 1 A, ALLERGEN BET V I-A, BET V 1-A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1DXC2Ligand/Ion(3ALPHA,5BETA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
3SO41Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:22 , ILE A:23 , VAL A:30 , ASP A:69 , TYR A:83 , ILE A:98 , ASN A:100 , TYR A:120 , SER A:136 , LEU A:143 , DXC A:1161BINDING SITE FOR RESIDUE DXC A1160
2AC2SOFTWAREPHE A:58 , PHE A:62 , PRO A:63 , PHE A:64 , PRO A:90 , ILE A:98 , GLN A:132 , ALA A:135 , DXC A:1160 , HOH A:2187 , HOH A:2188BINDING SITE FOR RESIDUE DXC A1161
3AC3SOFTWAREPHE A:62 , ALA A:135 , THR A:142 , HOH A:2056BINDING SITE FOR RESIDUE MPD A1162
4AC4SOFTWAREGLU A:6 , THR A:7 , GLU A:8 , LYS A:32 , TYR A:150BINDING SITE FOR RESIDUE SO4 A1163

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4A84)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4A84)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_BEV1A_BETPN_001 *F63LBEV1A_BETPN  ---  ---AF62L
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PATHOGENESIS_BETVIPS00451 Pathogenesis-related proteins Bet v I family signature.BEV1A_BETPN89-121  1A:88-120

(-) Exons   (0, 0)

(no "Exon" information available for 4A84)

(-) 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 BEV1A_BETPN | P15494 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:159
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151         
          BEV1A_BETPN     2 GVFNYETETTSVIPAARLFKAFILDGDNLFPKVAPQAISSVENIEGNGGPGTIKKISFPEGFPFKYVKDRVDEVDHTNFKYNYSVIEGGPIGDTLEKISNEIKIVATPDGGSILKISNKYHTKGDHEVKAEQVKASKEMGETLLRAVESYLLAHSDAYN 160
               SCOP domains d4a84a_ A: automated matches                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..hhhhhhhhhh.hhhhhhhhhh.....eeeeee.......eeeee........eeeeeeeeee....eeeeeeee.......eeeeeeeeeeee.....eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------L------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------PATHOGENESIS_BETVI  PDB: A:88-120--------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a84 A   1 GVFNYETETTSVIPAARLFKAFILDGDNLVPKVAPQAISSVENIEGNGGPGTIKKISFPEGFPFKYVKDRVDEVDHTNFKYNYSVIEGGPIGDTLEKISNEIKIVATPDGGSILKISNKYHTKGDHEVKAEQVKASKEMGETLLRAVESYLLAHSDAYN 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   Legend:   → Mismatch (orange background)
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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
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4A84)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4A84)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (BEV1A_BETPN | P15494)
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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  4a84
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  BEV1A_BETPN | P15494
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 Related Entries

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

UniProtKB/Swiss-Prot
        BEV1A_BETPN | P15494: 1b6f 1btv 1bv1 1fsk 1llt 1qmr 4a80 4a81 4a83 4a85 4a86 4a87 4a88 4a8g 4b9r 4bk6 4bk7 4bkc 4bkd 4btz 4mns 4qip 4z3l

(-) Related Entries Specified in the PDB File

1b6f BIRCH POLLEN ALLERGEN BET V 1
1btv STRUCTURE OF BET V 1, NMR, 20 STRUCTURES
1bv1 BIRCH POLLEN ALLERGEN BET V 1
1fsk COMPLEX FORMATION BETWEEN A FAB FRAGMENT OF A MONOCLONALIGG ANTIBODY AND THE MAJOR ALLERGEN FROM BIRCH POLLEN BET V1
1llt BIRCH POLLEN ALLERGEN BET V 1 MUTANT E45S
1qmr BIRCH POLLEN ALLERGEN BET V 1 MUTANT N28T, K32Q, E45S, P108G
4a80 CRYSTAL STRUCTURE OF MAJOR BIRCH POLLEN ALLERGEN BET V 1 A IN COMPLEX WITH 8-ANILINONAPHTHALENE-1-SULFONATE (ANS)
4a81 CRYSTAL STRUCTURE OF MAJOR BIRCH POLLEN ALLERGEN BET V 1 A IN TERNARY COMPLEX WITH 8-ANILINONAPHTHALENE-1- SULFONATE (ANS) AND DEOXYCHOLIC ACID
4a83 CRYSTAL STRUCTURE OF MAJOR BIRCH POLLEN ALLERGEN BET V 1 A IN COMPLEX WITH DEOXYCHOLATE.