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(-) Description

Title :  CRYSTAL STRUCTURE OF ENGINEERED NAJA NIGRICOLLIS TOXIN ALPHA
 
Authors :  E. A. Stura, P. Drevet, G. Gregory, M. Gallopin, M. Vandame
Date :  08 Jun 10  (Deposition) - 11 Aug 10  (Release) - 06 Apr 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Disulfide Pairing, Folding Intermediates, Three Finger Toxin Fold, Snake Toxin, Venom, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Gross, M. Gallopin, M. Vandame, J. Couprie, E. Stura, S. Zinn-Justin, P. Drevet
Conformational Exchange Is Critical For The Productivity Of An Oxidative Folding Intermediate With Buried Free Cysteines.
J. Mol. Biol. V. 403 299 2010
PubMed-ID: 20804768  |  Reference-DOI: 10.1016/J.JMB.2010.07.048

(-) Compounds

Molecule 1 - SHORT NEUROTOXIN 1
    Chains: A
    Engineered: YES
    Fragment: ENGINEERED TOXIN ALPHA
    Mutation: YES
    Other Details: THIS SEQUENCE HAS SER18 INSERTED IN THE ALPHA TOXIN FROM NAJA NIGRICOLLIS.
    Synonym: NEUROTOXIN ALPHA
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1MPD3Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2SO41Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:2 , HIS A:4 , PRO A:12 , THR A:14 , LYS A:59 , MPD A:65BINDING SITE FOR RESIDUE MPD A 63
2AC2SOFTWARESER A:9 , GLN A:10 , PRO A:12 , LYS A:47 , GLY A:49 , ILE A:50 , LYS A:51 , HOH A:102 , HOH A:112BINDING SITE FOR RESIDUE MPD A 64
3AC3SOFTWAREHIS A:4 , PRO A:12 , ARG A:30 , LYS A:59 , ASN A:62 , MPD A:63 , HOH A:92BINDING SITE FOR RESIDUE MPD A 65
4AC4SOFTWAREASN A:5 , LYS A:15 , HOH A:93 , HOH A:97 , HOH A:104 , HOH A:150BINDING SITE FOR RESIDUE SO4 A 66

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:3 -A:24
2A:3 -A:17
3A:3 -A:41
4A:17 -A:41
5A:43 -A:54
6A:55 -A:60

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3NDS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3NDS)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SNAKE_TOXINPS00272 Snake toxins signature.3S11_NAJPA39-57  1A:40-58

(-) Exons   (0, 0)

(no "Exon" information available for 3NDS)

(-) 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:62
 aligned with 3S11_NAJPA | P01426 from UniProtKB/Swiss-Prot  Length:61

    Alignment length:62
                                             18                                           
                                           17 |                                           
                                    10      | 19        29        39        49        59  
            3S11_NAJPA    1 LECHNQQSSQPPTTKTC-PGETNCYKKVWRDHRGTIIERGCGCPTVKPGIKLNCCTTDKCNN 61
               SCOP domains -------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.........eee.......eeeeeeee..eeeeeeee.........eeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------SNAKE_TOXIN        ---- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                  3nds A  1 LECHNQQSSQPPTTKTCSPGETNCYKKVWRDHRGTIIERGCGCPTVKPGIKLNCCTTDKCNN 62
                                    10        20        30        40        50        60
   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  (0, 0)

(no "SCOP Domain" information available for 3NDS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3NDS)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3NDS)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (3S11_NAJPA | P01426)
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
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.
    GO:0035792    other organism postsynaptic membrane    A postsynaptic membrane that is part of another organism, i.e. a secondary organism with which the first organism is interacting. A postsynaptic membrane is a specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters transmit the signal across the synaptic cleft to the postsynaptic membrane.

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 Related Entries

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

UniProtKB/Swiss-Prot
        3S11_NAJPA | P01426: 1iq9 1nea

(-) Related Entries Specified in the PDB File

1iq9 NAJA NIGROCOLLIS VENOM ALPHA NEUROTOXIN