SMTL ID : 7dkb.1

Stenotrophomonas maltophilia DPP7 in complex with Val-Tyr

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-dimer

Ligands

2 x VAL: VALINE(Non-covalent)

VAL.1: 9 residues within 4Å: Chain A: H.84, N.213, W.214, R.218, D.222, N.328, F.671, D.672 Ligands: TYR.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:N.213, A:N.213, A:N.328, Y.2 VAL.3: 9 residues within 4Å: Chain B: H.84, N.213, W.214, R.218, D.222, N.328, F.671, D.672 Ligands: TYR.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.213, B:N.213, B:N.328

2 x TYR: TYROSINE(Non-covalent)

TYR.2: 13 residues within 4Å: Chain A: H.84, W.214, I.650, T.651, G.652, G.653, N.654, S.655, F.671, D.672, G.673, S.677 Ligands: VAL.1 11 PLIP interactions: 9 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:W.214, A:W.214, A:I.650 Hydrogen bonds: A:G.653, A:S.655, A:S.655, A:F.671, V.1, Y.2 Water bridges: A:S.677 Salt bridges: A:H.84 TYR.4: 13 residues within 4Å: Chain B: H.84, W.214, I.650, T.651, G.652, G.653, N.654, S.655, F.671, D.672, G.673, S.677 Ligands: VAL.3 12 PLIP interactions: 12 interactions with chain B, Hydrophobic interactions: B:W.214, B:W.214, B:I.650, B:I.650 Hydrogen bonds: B:G.653, B:S.655, B:S.655, B:F.671, B:S.677 Water bridges: B:I.650, B:V.678 Salt bridges: B:H.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamura, A. et al., Structural basis for an exceptionally strong preference for asparagine residue at the S2 subsite of Stenotrophomonas maltophilia dipeptidyl peptidase 7. Sci Rep (2021)

Release Date

2021-11-03

Peptides

Dipeptidyl-peptidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dipeptidyl-peptidase

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