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(-) Description

Title :  CRYSTAL STRUCTURE OF ALPHA-DENDROTOXIN FROM THE GREEN MAMBA VENOM AND ITS COMPARISON WITH THE STRUCTURE OF BOVINE PANCREATIC TRYPSIN INHIBITOR
 
Authors :  T. Skarzynski
Date :  29 Apr 91  (Deposition) - 15 Jan 92  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Presynaptic Neurotoxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Skarzynski
Crystal Structure Of Alpha-Dendrotoxin From The Green Mamba Venom And Its Comparison With The Structure Of Bovine Pancreatic Trypsin Inhibitor.
J. Mol. Biol. V. 224 671 1992
PubMed-ID: 1373774  |  Reference-DOI: 10.1016/0022-2836(92)90552-U
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ALPHA-DENDROTOXIN
    Chains: A
    Engineered: YES
    Organism Common: EASTERN GREEN MAMBA
    Organism Scientific: DENDROASPIS ANGUSTICEPS
    Organism Taxid: 8618

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1PCA1Mod. Amino AcidPYROGLUTAMIC ACID
2SO45Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:3 , ARG A:4 , ARG A:15 , CYS A:40 , GLY A:41 , HOH A:84BINDING SITE FOR RESIDUE SO4 A 60
2AC2SOFTWAREASN A:12 , GLY A:14 , ARG A:15 , GLY A:41 , GLY A:42 , HOH A:65BINDING SITE FOR RESIDUE SO4 A 61
3AC3SOFTWAREHIS A:10 , LYS A:30 , ILE A:50 , ARG A:54 , HOH A:72BINDING SITE FOR RESIDUE SO4 A 62
4AC4SOFTWAREARG A:4 , LYS A:5 , TRP A:37 , HOH A:73 , HOH A:96BINDING SITE FOR RESIDUE SO4 A 63
5AC5SOFTWARETYR A:17 , TRP A:37 , ARG A:46 , PHE A:47 , LYS A:48BINDING SITE FOR RESIDUE SO4 A 64

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:7 -A:57
2A:16 -A:40
3A:32 -A:53

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BPTI_KUNITZ_2PS50279 Pancreatic trypsin inhibitor (Kunitz) family profile.VKTHA_DENAN7-57  1A:7-57
2BPTI_KUNITZ_1PS00280 Pancreatic trypsin inhibitor (Kunitz) family signature.VKTHA_DENAN35-53  1A:35-53

(-) Exons   (0, 0)

(no "Exon" information available for 1DTX)

(-) 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    
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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:59
 aligned with VKTHA_DENAN | P00980 from UniProtKB/Swiss-Prot  Length:59

    Alignment length:59
                                    10        20        30        40        50         
           VKTHA_DENAN    1 QPRRKLCILHRNPGRCYDKIPAFYYNQKKKQCERFDWSGCGGNSNRFKTIEECRRTCIG 59
               SCOP domains d1dtxa_ A: alpha-Dendrotoxin                                SCOP domains
               CATH domains -1dtxA00 A:2-59 Factor Xa Inhibitor                         CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author ..................eeeeeeeee...eeeeeeee...........hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------BPTI_KUNITZ_2  PDB: A:7-57 UniProt: 7-57           -- PROSITE (1)
                PROSITE (2) ----------------------------------BPTI_KUNITZ_1      ------ PROSITE (2)
                 Transcript ----------------------------------------------------------- Transcript
                  1dtx A  1 xPRRKLCILHRNPGRCYDKIPAFYYNQKKKQCERFDWSGCGGNSNRFKTIEECRRTCIG 59
                            |       10        20        30        40        50         
                            |                                                          
                            1-PCA
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Small proteins (3458)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Few Secondary Structures (1120)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (VKTHA_DENAN | P00980)
molecular function
    GO:0004867    serine-type endopeptidase inhibitor activity    Stops, prevents or reduces the activity of serine-type endopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide bonds in a polypeptide chain; a serine residue (and a histidine residue) are at the active center of the enzyme.
biological process
    GO:0010951    negative regulation of endopeptidase activity    Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
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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