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(-) Description

Title :  CRYSTAL STRUCTURE OF DENDROASPIS POLYLEPIS VENOM MAMBALGIN-1 T23A MUTANT
 
Authors :  E. A. Stura, L. Tepshi, P. Kessler, M. Gilles, D. Servent
Date :  10 Sep 15  (Deposition) - 30 Dec 15  (Release) - 25 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Toxin, Acid Sensing Ion Channels, Pain Suppression Drug, Elapid Venom Polypeptide (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Mourier, M. Salinas, P. Kessler, E. A. Stura, M. Leblanc, L. Tepshi, T. Besson, S. Diochot, A. Baron, D. Douguet, E. Lingueglia, D. Servent
Mambalgin-1 Pain-Relieving Peptide, Stepwise Solid-Phase Synthesis, Crystal Structure, And Functional Domain For Acid-Sensing Ion Channel 1A Inhibition.
J. Biol. Chem. V. 291 2616 2016
PubMed-ID: 26680001  |  Reference-DOI: 10.1074/JBC.M115.702373
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MAMBALGIN-1
    Chains: A, B
    Engineered: YES
    Fragment: UNP RESIDUES 22-78
    Mutation: YES
    Organism Common: BLACK MAMBA
    Organism Scientific: DENDROASPIS POLYLEPIS POLYLEPIS
    Organism Taxid: 8620
    Other Details: MAMBALGIN-1 T23A MUTANT
    Other Details - Source: T23A MUTANT
    Synonym: MAMB-1,PI-DP1
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2IOD5Ligand/IonIODIDE ION
3PGO1Ligand/IonS-1,2-PROPANEDIOL
Biological Unit 1 (3, 14)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2IOD10Ligand/IonIODIDE ION
3PGO2Ligand/IonS-1,2-PROPANEDIOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:1 , LEU B:1binding site for residue IOD A 101
2AC2SOFTWARESER A:39binding site for residue IOD A 103
3AC3SOFTWARETHR A:44 , HOH B:254binding site for residue IOD A 104
4AC4SOFTWAREHIS A:6 , GLY A:7 , GLN A:35 , LYS A:57binding site for residue EDO A 105
5AC5SOFTWAREMET B:25binding site for residue IOD B 101
6AC6SOFTWAREARG B:14 , ASP B:15 , LYS B:17 , HOH B:239binding site for residue PGO B 102

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:3 -A:19
2A:12 -A:37
3A:41 -A:49
4A:50 -A:55
5B:3 -B:19
6B:12 -B:37
7B:41 -B:49
8B:50 -B:55

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5DO6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric 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:57
                                                                                        
               SCOP domains --------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee......eeeeeeeeee..eeeeeeeee...hhhhhh.ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------- Transcript
                  5do6 A  1 LKCYQHGKVVTCHRDMKFCYHNAGMPFRNLKLILQGCSSSCSETENNKCCSTDRCNK 57
                                    10        20        30        40        50       


Chain B from PDB  Type:PROTEIN  Length:57
                                                                                        
               SCOP domains --------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee......eeeeeeeeee..eeeeeeeee...hhhhh..ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------- Transcript
                  5do6 B  1 LKCYQHGKVVTCHRDMKFCYHNAGMPFRNLKLILQGCSSSCSETENNKCCSTDRCNK 57
                                    10        20        30        40        50
   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 5DO6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5DO6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5DO6)

(-) Gene Ontology  (2, 2)

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 Related Entries

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        3SX1_DENPO | P0DKR6: 2mjy 5du1 5dz5

(-) Related Entries Specified in the PDB File

2mfa NMR STRUCTURE OF MAMBALGIN-2. RELATED TO MAMBALGIN 1 (Y4F).
2mjy NMR STRUCTURE OF THE WILD-TYPE MAMBALGIN-1