SMTL ID : 9frv.1

Arginase 2 in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-trimer

Ligands

6 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: H.115, D.138, D.142, D.246, E.291 Ligands: MN.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.115, A:D.138, A:D.142, A:D.246, H2O.1 MN.2: 5 residues within 4Å: Chain A: D.138, H.140, D.246, D.248 Ligands: MN.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.138, A:H.140, A:D.246, A:D.248, H2O.1 MN.3: 5 residues within 4Å: Chain B: H.115, D.138, D.142, D.246 Ligands: MN.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.115, B:D.138, B:D.142, B:D.246 MN.4: 5 residues within 4Å: Chain B: D.138, H.140, D.246, D.248 Ligands: MN.3 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.138, B:H.140, B:D.246, B:D.248, B:D.248 MN.5: 6 residues within 4Å: Chain C: H.115, D.138, D.142, D.246 Ligands: MN.6, 01.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.115, C:D.138, C:D.142, C:D.246 MN.6: 6 residues within 4Å: Chain C: D.138, H.140, D.246, D.248 Ligands: MN.5, 01.7 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.138, C:H.140, C:D.246, C:D.248, C:D.248

1 x 01: [(4~{S},5~{S})-4-(aminomethyl)-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]-$l^{3}-oxidanyl-bis(oxidanyl)boron

01.7: 17 residues within 4Å: Chain C: H.115, D.138, H.140, D.142, N.144, S.151, H.155, G.156, D.195, D.197, E.200, D.246, D.248, T.260, E.291 Ligands: MN.5, MN.6 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:N.144, C:S.151, C:H.155, C:D.195, C:D.197, C:T.260, C:T.260 Water bridges: C:D.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shields, J.D. et al., Design and Synthesis of Acyclic Boronic Acid Arginase Inhibitors. J.Med.Chem. (2024)

Release Date

2024-11-27

Peptides

Arginase-2, mitochondrial: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Arginase-2, mitochondrial

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