SMTL ID : 1hqg.1

CRYSTAL STRUCTURE OF THE H141C ARGINASE VARIANT COMPLEXED WITH PRODUCTS ORNITHINE AND UREA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

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

MN.1: 6 residues within 4Å: Chain A: H.101, D.124, D.128, D.232 Ligands: MN.2, URE.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.101, A:D.124, A:D.128, A:D.232, H2O.1 MN.2: 7 residues within 4Å: Chain A: D.124, H.126, D.232, D.234 Ligands: MN.1, ORN.3, URE.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.124, A:H.126, A:D.232, A:D.234, H2O.1 MN.5: 6 residues within 4Å: Chain B: H.101, D.124, D.128, D.232 Ligands: MN.6, URE.8 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.101, B:D.124, B:D.128, B:D.232, H2O.3 MN.6: 7 residues within 4Å: Chain B: D.124, H.126, D.232, D.234 Ligands: MN.5, ORN.7, URE.8 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.124, B:H.126, B:D.232, B:D.234, H2O.3 MN.9: 6 residues within 4Å: Chain C: H.101, D.124, D.128, D.232 Ligands: MN.10, URE.12 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.101, C:D.124, C:D.128, C:D.232, H2O.5 MN.10: 7 residues within 4Å: Chain C: D.124, H.126, D.232, D.234 Ligands: MN.9, ORN.11, URE.12 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.124, C:H.126, C:D.232, C:D.234, H2O.5

3 x ORN: L-ornithine(Non-covalent)

ORN.3: 11 residues within 4Å: Chain A: H.126, D.128, N.130, S.137, C.141, G.142, D.183, E.186, T.246 Ligands: MN.2, URE.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.130, A:S.137, A:E.186 Water bridges: A:D.128, A:S.137, A:S.137, A:N.139 ORN.7: 11 residues within 4Å: Chain B: H.126, D.128, N.130, S.137, C.141, G.142, D.183, E.186, T.246 Ligands: MN.6, URE.8 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.130, B:S.137, B:E.186 Water bridges: B:D.128, B:S.137, B:S.137, B:N.139 ORN.11: 11 residues within 4Å: Chain C: H.126, D.128, N.130, S.137, C.141, G.142, D.183, E.186, T.246 Ligands: MN.10, URE.12 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:N.130, C:S.137, C:E.186 Water bridges: C:D.128, C:S.137, C:S.137, C:N.139

3 x URE: UREA(Non-functional Binders)

URE.4: 10 residues within 4Å: Chain A: H.101, D.124, D.128, C.141, D.232, D.234, E.277 Ligands: MN.1, MN.2, ORN.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.234, A:E.277 Water bridges: A:Q.19, A:T.246 URE.8: 10 residues within 4Å: Chain B: H.101, D.124, D.128, C.141, D.232, D.234, E.277 Ligands: MN.5, MN.6, ORN.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.234, B:E.277 Water bridges: B:Q.19, B:T.246 URE.12: 10 residues within 4Å: Chain C: H.101, D.124, D.128, C.141, D.232, D.234, E.277 Ligands: MN.9, MN.10, ORN.11 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:D.234, C:E.277 Water bridges: C:Q.19, C:T.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cox, J.D. et al., Mechanistic and metabolic inferences from the binding of substrate analogues and products to arginase. Biochemistry (2001)

Release Date

2001-04-04

Peptides

ARGINASE 1: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

ARGINASE 1