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Structure of quasiracemic ala-magainin 2 with a beta amino acid substitution at position 8

Analyse Structure of quasiracemic ala-magainin 2 with a beta amino acid substitution at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5CGN
Type: protein
Length: 176 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: D-ala-magainin derivative; L-ACPC8-ala-magainin
Ligands: CL

Structure

x-ray diffraction · 2 distinct chains · 89% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	D-ala-magainin derivative	protein	22	91% helix, 0% strand	—
E, F, G, H	L-ACPC8-ala-magainin	protein	22	86% helix, 0% strand	—

Ligands and binding sites

CL · Chloride ion · ion · 2 copies · chains A

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

Interfaces

9 interfaces between chains.

E–F · 567 Å² buried · 2 hydrogen bonds · protein-protein
G–H · 473 Å² buried · 2 hydrogen bonds · protein-protein
C–D · 420 Å² buried · 3 hydrogen bonds · protein-protein
A–B · 411 Å² buried · 0 hydrogen bonds · protein-protein
D–E · 152 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 80 d-amino, 4 modified (D-amino acid, nonstandard).

Compared structures

5CGN · Structure of quasiracemic Ala-Magainin 2 with a beta amino acid substitution at position 8 · the same entry in another collection · chain G against G, TM-score 1.00

Analyse

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

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