5DO6: Mambalgin-1

Crystal structure of Dendroaspis polylepis venom mambalgin-1 T23A mutant. Determined by X-ray diffraction at 1.7 Å resolution. Released 30 Dec 2015.

Method: X-ray diffraction
Resolution: 1.7 Å
Organism: Dendroaspis polylepis polylepis
Chains: 2
Atoms: 1,171
Mol. weight: 13.86 kDa
Ligands: PGO
Released: 30 Dec 2015

Explore 5DO6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5DO6 contains 6 α-helices and 10 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	2-5	4	1
β-strand	8-11	4	1
α-helix	12-13	2
β-strand	18-27	10	2
β-strand	30-38	9	2
α-helix	40-42	3
α-helix	43-48	6
β-strand	49-50	2	2

Chain B: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	2-5	4	3
β-strand	8-11	4	3
α-helix	12-13	2
β-strand	18-27	10	2
β-strand	30-38	9	2
α-helix	40-42	3
α-helix	43-45	3
β-strand	49-50	2	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Mambalgin-1	A, B	protein	57	Dendroaspis polylepis polylepis	P0DKR6 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>5DO6_1 Mambalgin-1 (chains A, B)
LKCYQHGKVVTCHRDMKFCYHNAGMPFRNLKLILQGCSSSCSETENNKCCSTDRCNK

Ligands and cofactors

ID	Name	Formula	Copies
PGO	S-1,2-propanediol	C3 H8 O2	1

Water and common crystallization additives (EDO, IOD) are not listed.

Primary citation

Mambalgin-1 Pain-relieving Peptide, Stepwise Solid-phase Synthesis, Crystal Structure, and Functional Domain for Acid-sensing Ion Channel 1a Inhibition. Mourier, G., Salinas, M., Kessler, P. et al. J Biol Chem (2016) 291:2616-2629. DOI 10.1074/jbc.M115.702373 · PubMed

Other PDB entries of the same protein (UniProt P0DKR6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5DU1 1.8 Å, Crystal structure of Dendroaspis polylepis mambalgin-1 wild-type in P21 space group.
5DZ5 1.95 Å, Crystal structure of Dendroaspis polylepis mambalgin-1 wild-type in P41212 space group
7ULB 2.49 Å, recombinant Mambalgin-1
7CFT 3.9 Å, Cryo-EM strucutre of human acid-sensing ion channel 1a in complex with snake toxin…
2MJY Solution structure of synthetic Mamba-1 peptide

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