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(-) Description

Title :  SOLUTION STRUCTURE OF VARV F
 
Authors :  C. K. Wang
Date :  10 Aug 08  (Deposition) - 10 Feb 09  (Release) - 09 Jun 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Cyclotide, Cystine Knot, Knottin, Plant Defense, Plant Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. K. Wang, S. -H. Hu, J. L. Martin, T. Sjogren, J. Hajdu, L. Bohlin, P. Claeson, U. Goransson, K. J. Rosengren, J. Tang, N. -H. Tan, D. J. Craik
Combined X-Ray And Nmr Analysis Of The Stability Of The Cyclotide Cystine Knot Fold That Underpins Its Insecticidal Activity And Potential Use As A Drug Scaffold
J. Biol. Chem. V. 284 10672 2009
PubMed-ID: 19211551  |  Reference-DOI: 10.1074/JBC.M900021200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VARV PEPTIDE F
    Chains: A
    Organism Common: EUROPEAN FIELD PANSY
    Organism Scientific: VIOLA ARVENSIS
    Organism Taxid: 97415

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2K7G)

(-) Sites  (0, 0)

(no "Site" information available for 2K7G)

(-) SS Bonds  (3, 3)

NMR Structure
No.Residues
1A:5 -A:19
2A:9 -A:21
3A:14 -A:26

(-) Cis Peptide Bonds  (1, 20)

NMR Structure
No.ModelResidues
11, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20Trp A:23 -Pro A:24

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2K7G)

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CYCLOTIDEPS51052 Cyclotides profile.VARF_VIOAR1-29  1A:1-29
2CYCLOTIDE_MOEBIUSPS60009 Cyclotides Moebius subfamily signature.VARF_VIOAR5-14  1A:5-14

(-) Exons   (0, 0)

(no "Exon" information available for 2K7G)

(-) Sequences/Alignments

NMR Structure
   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:29
 aligned with VARF_VIOAR | P58451 from UniProtKB/Swiss-Prot  Length:29

    Alignment length:29
                                    10        20         
            VARF_VIOAR    1 GVPICGETCTLGTCYTAGCSCSWPVCTRN 29
               SCOP domains d2k7ga_ A: automated matches  SCOP domains
               CATH domains ----------------------------- CATH domains
               Pfam domains ----------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhh......eeee..eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------- SAPs(SNPs)
                PROSITE (1) CYCLOTIDE  PDB: A:1-29        PROSITE (1)
                PROSITE (2) ----CYCLOTIDE_--------------- PROSITE (2)
                 Transcript ----------------------------- Transcript
                  2k7g A  1 GVPICGETCTLGTCYTAGCSCSWPVCTRN 29
                                    10        20
   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, 1)

NMR Structure
(-)
Class: Small proteins (3458)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2K7G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2K7G)

(-) Gene Ontology  (3, 3)

NMR Structure(hide GO term definitions)
Chain A   (VARF_VIOAR | P58451)
molecular function
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
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:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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  Cis Peptide Bonds
    Trp A:23 - Pro A:24   [ RasMol ]  
 

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 Related Entries

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UniProtKB/Swiss-Prot
        VARF_VIOAR | P58451: 3e4h

(-) Related Entries Specified in the PDB File

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