SMTL ID : 3f80.1 (1 other biounit)

(S)-2-amino-6-nitrohexanoic acid binds to human arginase I through multiple nitro-metal coordination interactions in the binuclear manganese cluster. Resolution 1.60 A.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-trimer

Ligands

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

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

6 x 6HN: 6-nitro-L-norleucine(Non-covalent)(Non-functional Binders)

6HN.3: 16 residues within 4Å: Chain A: H.101, D.124, H.126, D.128, N.130, S.137, H.141, G.142, D.183, E.186, D.232, D.234, T.246, E.277 Ligands: MN.1, MN.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.130, A:S.137, A:D.183, A:D.183 Water bridges: A:D.128, A:T.135, A:T.135, A:S.137, A:N.139, A:N.139 6HN.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) 6HN.7: 16 residues within 4Å: Chain B: H.101, D.124, H.126, D.128, N.130, S.137, H.141, G.142, D.183, E.186, D.232, D.234, T.246, E.277 Ligands: MN.5, MN.6 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:N.130, B:S.137, B:D.183, B:D.183 Water bridges: B:D.128, B:T.135, B:T.135, B:S.137, B:N.139, B:N.139 6HN.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) 6HN.11: 16 residues within 4Å: Chain C: H.101, D.124, H.126, D.128, N.130, S.137, H.141, G.142, D.183, E.186, D.232, D.234, T.246, E.277 Ligands: MN.9, MN.10 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:N.130, C:S.137, C:D.183, C:D.183 Water bridges: C:D.128, C:T.135, C:T.135, C:S.137, C:N.139, C:N.139 6HN.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zakharian, T.Y. et al., (S)-2-Amino-6-nitrohexanoic Acid Binds to Human Arginase I through Multiple Nitro-Metal Coordination Interactions in the Binuclear Manganese Cluster. J.Am.Chem.Soc. (2008)

Release Date

2008-12-02

Peptides

Arginase-1: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Arginase-1

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