SMTL ID : 8rfa.1

Arginase 2 in complex with an inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 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 Ligands: MN.2, 01.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.115, A:D.138, A:D.142, A:D.246 MN.2: 6 residues within 4Å: Chain A: D.138, H.140, D.246, D.248 Ligands: MN.1, 01.3 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.138, A:H.140, A:D.246, A:D.248, A:D.248 MN.4: 5 residues within 4Å: Chain B: H.115, D.138, D.142, D.246 Ligands: MN.5 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.115, B:D.138, B:D.142, B:D.246, H2O.9 MN.5: 5 residues within 4Å: Chain B: D.138, H.140, D.246, D.248 Ligands: MN.4 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.138, B:H.140, B:D.246, B:D.248, H2O.9 MN.6: 5 residues within 4Å: Chain C: H.115, D.138, D.142, D.246 Ligands: MN.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.115, C:D.138, C:D.142, C:D.246 MN.7: 5 residues within 4Å: Chain C: D.138, H.140, D.246, D.248 Ligands: MN.6 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~{R},5~{S})-4-(aminomethyl)-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]-tris(oxidanyl)boron

01.3: 17 residues within 4Å: Chain A: 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.1, MN.2 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:N.144, A:S.151, A:D.195, A:D.197, A:D.197, A:E.291 Water bridges: A:D.142, A:S.151, A:S.151, A:S.151, A:N.153, A:G.156, A:G.156, A:T.260, A:E.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mlynarski, S.N. et al., Discovery of (2 R ,4 R )-4-(( S )-2-Amino-3-methylbutanamido)-2-(4-boronobutyl)pyrrolidine-2-carboxylic Acid (AZD0011), an Actively Transported Prodrug of a Potent Arginase Inhibitor to Treat Cancer. 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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