SMTL ID : 8rg6.1

Arginase 2 in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 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: 6 residues within 4Å: Chain B: H.115, D.138, D.142, D.246 Ligands: MN.5, 01.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.115, B:D.138, B:D.142, B:D.246 MN.5: 6 residues within 4Å: Chain B: D.138, H.140, D.246, D.248 Ligands: MN.4, 01.6 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.7: 6 residues within 4Å: Chain C: H.115, D.138, D.142, D.246 Ligands: MN.8, 01.9 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.115, C:D.138, C:D.142, C:D.246 MN.8: 6 residues within 4Å: Chain C: D.138, H.140, D.246, D.248 Ligands: MN.7, 01.9 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

3 x 01: (2~{S},3~{R})-3-[3-(dihydroxyboranyl)propyl]pyrrolidine-2-carboxylic acid

01.3: 15 residues within 4Å: Chain A: D.138, H.140, D.142, N.144, S.151, H.155, G.156, D.195, D.197, E.200, D.246, D.248, E.291 Ligands: MN.1, MN.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.144, A:S.151, A:D.197 Water bridges: A:S.151, A:S.151, A:S.151, A:N.153, A:G.156, A:G.156, A:T.260, A:T.260, A:E.291 01.6: 15 residues within 4Å: Chain B: D.138, H.140, D.142, N.144, S.151, H.155, G.156, D.195, D.197, E.200, D.246, D.248, E.291 Ligands: MN.4, MN.5 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.144, B:S.151, B:D.197 Water bridges: B:T.149, B:T.149, B:S.151, B:S.151, B:N.153, B:G.156 01.9: 16 residues within 4Å: Chain C: 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.7, MN.8 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:N.144, C:S.151, C:D.197, C:D.197 Water bridges: C:T.149, C:S.151, C:S.151, C:G.156, C:T.260, C:T.260, C:T.260

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

2024-12-04

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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