MolNFT v1 · #116779 · protein

Crystal structure of dendroaspis polylepis venom mambalgin-1 T23A mutant

5DO6: “Crystal structure of dendroaspis polylepis venom mambalgin-1 T23A mutant”. X-ray diffraction, 1 ligand (IOD). MolNFT v1 #116779 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5DO6
Type: protein
Length: 114 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mambalgin-1
UniProt: P0DKR6
Ligands: IOD

Structure

x-ray diffraction · 1 distinct chain · 11% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Mambalgin-1	protein	57	11% helix, 51% strand	P0DKR6

Ligands and binding sites

IOD · Iodide ion · ion · 5 copies · chains A, B
EDO · 1,2-ethanediol · additive · chains A
PGO · S-1,2-propanediol · additive · chains B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

1 interface between chains.

A–B · 606 Å² buried · 10 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 8 disulfide (disulfide).

Compared structures

5DO6 · Crystal structure of Dendroaspis polylepis venom mambalgin-1 T23A mutant · the same entry in another collection · chain A against A, TM-score 1.00
P0DKR6 · AlphaFold monomer V2.0 prediction for mambalgin-1 (P0DKR6) · a predicted model of the same protein · chain A against A, TM-score 0.79

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P0DKR6
Elsewhere: RCSB PDB 5DO6 · PDBe 5DO6 · UniProt P0DKR6

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