SMTL ID : 5l44.2 (1 other biounit)

Structure of K-26-DCP in complex with the K-26 tripeptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.475, H.479, E.504, S.507 Ligands: K26.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.475, A:H.479, A:E.504, A:E.504

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.536, D.539 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.536, A:D.539, H2O.14 MG.3: 1 residues within 4Å: Chain A: E.511 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 6 residues within 4Å: Chain A: R.597, Y.598, H.605, Y.615, Y.618 Ligands: K26.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.598, A:Y.618 Salt bridges: A:R.597, A:H.605

1 x K26: N-ACETYL-L-ILE-L-TYR-(R)-1-AMINO-2-(4-HYDROXYPHENYL)ETHYLPHOSPHONIC ACID(Non-covalent)

K26.5: 18 residues within 4Å: Chain A: R.427, A.430, W.431, M.432, N.433, H.475, E.476, H.479, T.496, R.500, V.503, E.504, H.605, S.609, Y.611, Y.618 Ligands: ZN.1, SO4.4 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.503 Hydrogen bonds: A:A.430, A:A.430, A:M.432, A:M.432, A:R.500, A:R.500, A:Y.611, A:Y.611 Water bridges: A:R.427, A:A.430, A:S.434, A:E.476, A:E.476, A:T.496, A:T.496, A:V.498 pi-Stacking: A:H.605

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Masuyer, G. et al., Crystal structure of a peptidyl-dipeptidase K-26-DCP from Actinomycete in complex with its natural inhibitor. FEBS J. (2016)

Release Date

2016-10-26

Peptides

K-26 dipeptidyl carboxypeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

K-26 dipeptidyl carboxypeptidase

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