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(-) Description

Title :  VISCOTOXIN A3 FROM VISCUM ALBUM L.
 
Authors :  J. E. Debreczeni, B. Girmann, A. Zeeck, G. M. Sheldrick
Date :  24 Jul 03  (Deposition) - 04 Dec 03  (Release) - 14 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Thionin, Toxin, Plant Defense (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. E. Debreczeni, B. Girmann, A. Zeeck, R. Kratzner, G. M. Sheldrick
Structure Of Viscotoxin A3: Disulfide Location From Weak Sad Data
Acta Crystallogr. , Sect. D V. 59 2125 2003
PubMed-ID: 14646070  |  Reference-DOI: 10.1107/S0907444903018973

(-) Compounds

Molecule 1 - VISCOTOXIN A3
    Chains: A, B
    Fragment: VISCOTOXIN A3 CHAIN, RESIDUES 27-72
    Organ: LEAVES, STEMS
    Organism Common: EUROPEAN MISTLETOE
    Organism Scientific: VISCUM ALBUM
    Organism Taxid: 3972

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1PO42Ligand/IonPHOSPHATE ION
2SO41Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:1 , SER A:2 , TYR A:13 , ARG A:23 , HOH A:2021 , HOH A:2052 , HOH A:2053 , HOH A:2054 , SER B:42BINDING SITE FOR RESIDUE PO4 A1047
2AC2SOFTWARESER A:38 , THR A:39 , HOH A:2043 , ARG B:17 , PRO B:22 , ARG B:23 , PRO B:24 , HOH B:2030BINDING SITE FOR RESIDUE SO4 A1048
3AC3SOFTWARESER B:2 , TYR B:13 , ARG B:23BINDING SITE FOR RESIDUE PO4 B1047

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:3 -A:40
2A:4 -A:32
3A:16 -A:26
4B:3 -B:40
5B:4 -B:32
6B:16 -B:26

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1OKH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OKH)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIONINPS00271 Plant thionins signature.THN3_VISAL29-42
 		  2A:3-16
B:3-16

(-) Exons   (0, 0)

(no "Exon" information available for 1OKH)

(-) 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:46
 aligned with THN3_VISAL | P01538 from UniProtKB/Swiss-Prot  Length:111

    Alignment length:46
                                    36        46        56        66      
            THN3_VISAL   27 KSCCPNTTGRNIYNACRLTGAPRPTCAKLSGCKIISGSTCPSDYPK 72
               SCOP domains d1okha_ A: Viscotoxin a3                       SCOP domains
               CATH domains 1okhA00 A:1-46                                 CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhhhhhhhhh..hhhhhhhhhh.ee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE --THIONIN       ------------------------------ PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1okh A  1 KSCCPNTTGRNIYNACRLTGAPRPTCAKLSGCKIISGSTCPSDYPK 46
                                    10        20        30        40      


Chain B from PDB  Type:PROTEIN  Length:46
 aligned with THN3_VISAL | P01538 from UniProtKB/Swiss-Prot  Length:111

    Alignment length:46
                                    36        46        56        66      
            THN3_VISAL   27 KSCCPNTTGRNIYNACRLTGAPRPTCAKLSGCKIISGSTCPSDYPK 72
               SCOP domains d1okhb_ B: Viscotoxin a3                       SCOP domains
               CATH domains 1okhB00 B:1-46                                 CATH domains
           Pfam domains (1) Thionin-1okhB01 B:1-46                         Pfam domains (1)
           Pfam domains (2) Thionin-1okhB02 B:1-46                         Pfam domains (2)
         Sec.struct. author .ee..hhhhhhhhhhhhhh..hhhhhhhhhh.ee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE --THIONIN       ------------------------------ PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1okh B  1 KSCCPNTTGRNIYNACRLTGAPRPTCAKLSGCKIISGSTCPSDYPK 46
                                    10        20        30        40
   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
(-)
Class: Small proteins (3458)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Thionin] (10)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (THN3_VISAL | P01538)
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.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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        THN3_VISAL | P01538: 1ed0

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