SMTL ID : 8brp.1 (1 other biounit)

Peptide Arginase OspR from the cyanobacterium Kamptonema sp.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 6 residues within 4Å: Chain A: D.40, H.42, D.166, D.168 Ligands: MN.2, ACT.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.40, A:H.42, A:D.168, A:D.168, ACT.3 MN.2: 6 residues within 4Å: Chain A: H.13, D.40, D.44, D.166 Ligands: MN.1, ACT.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.13, A:D.40, A:D.44, A:D.166, ACT.3 MN.5: 6 residues within 4Å: Chain B: D.40, H.42, D.166, D.168 Ligands: MN.6, ACT.7 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.40, B:H.42, B:D.166, B:D.168, B:D.168 MN.6: 6 residues within 4Å: Chain B: H.13, D.40, D.44, D.166 Ligands: MN.5, ACT.7 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.13, B:D.40, B:D.44, B:D.166, ACT.7

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 9 residues within 4Å: Chain A: H.13, D.40, H.42, D.44, I.74, D.166, D.168 Ligands: MN.1, MN.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.74 Hydrogen bonds: A:D.166 Water bridges: A:H.13 Salt bridges: A:H.13, A:H.42 ACT.7: 9 residues within 4Å: Chain B: H.13, D.40, H.42, D.44, I.74, D.166, D.168 Ligands: MN.5, MN.6 5 PLIP interactions: 5 interactions with chain B Water bridges: B:H.13, B:S.265, B:S.265 Salt bridges: B:H.13, B:H.42

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: S.70, E.71 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mordhorst, S. et al., Structural and Biochemical Insights into Post-Translational Arginine-to-Ornithine Peptide Modifications by an Atypical Arginase. Acs Chem.Biol. (2023)

Release Date

2023-03-01

Peptides

Peptide arginase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Peptide arginase

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