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(-) Description

Title :  CRYSTAL STRUCTURE OF BIRCH POLLEN ALLERGEN BET V 1 ISOFORM J IN COMPLEX WITH 8-ANILINONAPHTHALENE-1-SULFONATE (ANS)
 
Authors :  S. Kofler, H. Brandstetter
Date :  21 Nov 11  (Deposition) - 30 May 12  (Release) - 15 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.23
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
    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
    Organism Common: EUROPEAN WHITE BIRCH
    Organism Scientific: BETULA PENDULA
    Organism Taxid: 3505
    Synonym: ALLERGEN BET V I-J, 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, 8)

Asymmetric/Biological Unit (4, 8)
No.NameCountTypeFull Name
12AN1Ligand/Ion8-ANILINO-1-NAPHTHALENE SULFONATE
2MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
3SO44Ligand/IonSULFATE ION
4TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:7 , PHE A:22 , TYR A:83 , ILE A:116 , ASN A:118 , SER A:136 , LYS A:137 , GLU A:141BINDING SITE FOR RESIDUE 2AN A1160
2AC2SOFTWAREGLY A:26 , ASP A:27 , PHE A:30 , VAL A:41 , LYS A:54 , ASP A:69 , TYR A:81 , TYR A:83 , TRS A:1166 , HOH A:2030BINDING SITE FOR RESIDUE MPD A1161
3AC3SOFTWAREALA A:9 , THR A:10 , GLU A:141 , ARG A:145BINDING SITE FOR RESIDUE SO4 A1162
4AC4SOFTWARELYS A:134 , GLU A:138BINDING SITE FOR RESIDUE SO4 A1163
5AC5SOFTWAREGLU A:6 , THR A:7 , GLU A:8 , LYS A:32 , TYR A:150 , HOH A:2173BINDING SITE FOR RESIDUE SO4 A1164
6AC6SOFTWAREPHE A:64 , SER A:136 , MET A:139 , HOH A:2089 , HOH A:2183BINDING SITE FOR RESIDUE MPD A1165
7AC7SOFTWAREILE A:23 , GLY A:48 , LYS A:54 , TYR A:81 , MPD A:1161 , HOH A:2031 , HOH A:2111BINDING SITE FOR RESIDUE TRS A1166

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4A8V)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4A8V)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4A8V)

(-) 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 4A8V)

(-) 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 d4a8va_ 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
                 4a8v A   1 GVFNYETEATSVIPAARLFKAFILDGDNLFPKVAPQAISSVENIEGNGGPGTIKKISFPEGFPFKYVKDRVDEVDHTNFKYSYSVIEGGPVGDTLEKISNEIKIVATPNGGSILKINNKYHTKGDHEVKAEQIKASKEMGETLLRAVESYLLAHSDAYN 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   Legend:   → Mismatch (orange background)
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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, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4A8V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4A8V)

(-) 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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  4a8v
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 Related Entries

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

UniProtKB/Swiss-Prot
        BEV1J_BETPN | P43183: 4a8u

(-) Related Entries Specified in the PDB File

4a8u CRYSTAL STRUCTURE OF NATIVE BIRCH POLLEN ALLERGEN BET V 1 ISOFORM J