SMTL ID : 5sdh.1

PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with Z2856434854

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

homo-dimer

Ligands

2 x I81: 1-[(3-methoxyphenyl)methyl]piperidine-4-carboxamide(Non-covalent)

I81.1: 8 residues within 4Å: Chain A: E.246, K.565, S.568, N.572, V.573, Y.574 Chain B: Y.574, G.576 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.576, A:E.246, A:K.565 Hydrophobic interactions: A:Y.574 I81.4: 8 residues within 4Å: Chain A: Y.574, G.576 Chain B: E.246, K.565, S.568, N.572, V.573, Y.574 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.576, B:K.565, B:K.565

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: T.350, P.351, R.352 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain A: R.328, L.665, A.666, D.667, Y.668 Ligand excluded by PLIP CL.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tham, C.T. et al., PanDDA analysis group deposition. To Be Published

Release Date

2022-02-09

Peptides

Asp/Glu-specific dipeptidyl-peptidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Asp/Glu-specific dipeptidyl-peptidase

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