SMTL ID : 3h7c.1

Crystal Structure of Arabidopsis thaliana Agmatine Deiminase from Cell Free Expression

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 2 residues within 4Å: Chain A: V.349, G.350 Ligand excluded by PLIP CL.2: 1 residues within 4Å: Chain A: R.144 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: S.95, D.119, W.120, S.143 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.119, A:W.120, H2O.3, H2O.8, H2O.9

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 3 residues within 4Å: Chain A: R.73, K.74, L.76 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.74, A:L.76 NA.5: 1 residues within 4Å: Ligands: 1PE.8 No protein-ligand interaction detected (PLIP)

1 x K: POTASSIUM ION(Non-covalent)

K.6: 5 residues within 4Å: Chain A: W.125, D.130, E.219, D.220, N.222 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:W.125, A:D.130, A:D.220, H2O.13

1 x 211: 2,2',2''-NITRILOTRIETHANOL(Non-covalent)

211.7: 12 residues within 4Å: Chain A: N.35, D.89, W.91, D.94, W.125, C.132, D.220, T.221, R.301, A.360, G.361, G.362 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.35, A:D.94, A:R.301, A:R.301 Water bridges: A:N.35, A:D.220, A:G.361

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.8: 6 residues within 4Å: Chain A: Y.283, M.284, E.286, A.303, G.304 Ligands: NA.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Burgie, E.S. et al., Structural Insights into the Catalytic Mechanism of Arabidopsis thaliana Agmatine Deiminase. To be Published

Release Date

2009-05-26

Peptides

Agmatine deiminase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

Agmatine deiminase

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