SMTL ID : 6q87.1

Structure of Fucosylated D-antimicrobial peptide SB10 in complex with the Fucose-binding lectin PA-IIL at 2.541 Angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

hetero-1-1-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: E.95, D.99, D.101, D.104 Ligands: CA.2, ZDC.3 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.95, A:E.95, A:D.99, A:D.101, A:D.104 CA.2: 6 residues within 4Å: Chain A: N.21, D.101, N.103, D.104 Ligands: CA.1, ZDC.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:N.21, A:D.101, A:D.104

1 x ZDC: 3,7-anhydro-2,8-dideoxy-L-glycero-D-gluco-octonic acid(Post Translational Modification)

ZDC.3: 16 residues within 4Å: Chain A: N.21, S.22, S.23, T.45, E.95, D.96, G.97, D.99, D.101, D.104 Chain B: L.1, L.2, K.3, A.4 Ligands: CA.1, CA.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:T.45 Hydrogen bonds: A:S.23, A:S.23, A:G.97, A:D.99, A:D.104, A:D.104

1 x NH2: AMINO GROUP(Non-functional Binders)

NH2.4: 4 residues within 4Å: Chain B: K.10, K.11, Y.12, K.13 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Baeriswyl, S. et al., X-ray Crystal Structures of Short Antimicrobial Peptides as Pseudomonas aeruginosa Lectin B Complexes. Acs Chem.Biol. (2019)

Release Date

2019-03-20

Peptides

Fucose-binding lectin: A
SB10: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Fucose-binding lectin

SB10

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