SMTL ID : 7dkd.2 (2 other biounits)

Stenotrophomonas maltophilia DPP7 in complex with Asn-Tyr

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.92 Å

Oligo State

monomer

Ligands

1 x ASN: ASPARAGINE(Non-covalent)

ASN.1: 8 residues within 4Å: Chain A: H.84, N.213, W.214, R.218, N.328, F.671, D.672 Ligands: TYR.2 9 PLIP interactions: 7 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:N.213, A:N.213, A:R.218, A:N.328, N.1 Water bridges: A:K.206, A:D.222, A:D.222, N.1

1 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: ASN.1 11 PLIP interactions: 11 interactions with chain A, Hydrophobic interactions: A:W.214, A:W.214, A:I.650, A:I.650 Hydrogen bonds: A:G.653, A:S.655, A:S.655, A:F.671 Water bridges: A:S.677, A:V.678 Salt bridges: A:H.84

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: A.64, G.66, F.123, R.173, Y.175, N.188, Y.270, L.576 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.173, A:Y.175, A:N.188 Water bridges: A:G.67, A:G.67, A:G.67, A:G.67 GOL.4: 5 residues within 4Å: Chain A: Q.257, P.258, G.260, D.263, R.636 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.257, A:G.260, A:R.636, A:R.636 GOL.5: 5 residues within 4Å: Chain A: E.165, F.170, R.171, E.190, R.430 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.171, A:E.190 Water bridges: A:E.165, A:G.169

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: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dipeptidyl-peptidase

Related Entries With Identical Sequence