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(-) Description

Title :  CRYSTAL STRUCTURE AT 1.8 A OF TOXIN A FROM NAJA NIGRICOLLIS VENOM
 
Authors :  R. Menez, M. H. Le Du, A. Menez
Date :  10 Jul 01  (Deposition) - 25 Nov 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Neurotoxin, Three Fingers Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Gilquin, M. Bourgoin, R. Menez, M. H. Le Du, D. Servent, S. Zinn-Justin, A. Menez
Motions And Structural Variability Within Toxins: Implication For Their Use As Scaffolds For Protein Engineering
Protein Sci. V. 12 266 2003
PubMed-ID: 12538890  |  Reference-DOI: 10.1110/PS.0227703
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ALPHA-NEUROTOXIN
    Chains: A
    Organism Common: SPITTING COBRA
    Organism Scientific: NAJA NIGRICOLLIS
    Organism Taxid: 8654
    Synonym: SHORT NEUROTOXIN 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:15 , TYR A:24 , HIS A:31 , ARG A:32 , GLY A:39 , CYS A:40 , HOH A:113 , HOH A:129BINDING SITE FOR RESIDUE SO4 A 201

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:3 -A:23
2A:17 -A:40
3A:42 -A:53
4A:54 -A:59

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1IQ9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IQ9)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SNAKE_TOXINPS00272 Snake toxins signature.3S11_NAJPA39-57  1A:39-57

(-) Exons   (0, 0)

(no "Exon" information available for 1IQ9)

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

    Alignment length:61
                                    10        20        30        40        50        60 
            3S11_NAJPA    1 LECHNQQSSQPPTTKTCPGETNCYKKVWRDHRGTIIERGCGCPTVKPGIKLNCCTTDKCNN 61
               SCOP domains d1iq9a_ A: alpha-Toxin                                        SCOP domains
               CATH domains 1iq9A00 A:1-61 CD59                                           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
                  1iq9 A  1 LECHNQQSSQPPTTKTCPGETNCYKKVWRDHRGTIIERGCGCPTVKPGIKLNCCTTDKCNN 61
                                    10        20        30        40        50        60
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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: Small proteins (3458)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IQ9)

(-) 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: 1nea 3nds

(-) Related Entries Specified in the PDB File

1nea 1NEA CONTAINS SOLUTION STRUCTURE OF TOXIN A FROM NAJA NIGRICOLLIS VENOM