SMTL ID : 1dry.1

CRYSTAL STRUCTURE OF CLAVAMINATE SYNTHASE IN COMPLEX WITH FE(II), 2-OXOGLUTARATE AND N-ALPHA-L-ACETYL ARGININE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x AAG: N-ALPHA-L-ACETYL-ARGININE(Non-covalent)

AAG.1: 13 residues within 4Å: Chain A: L.114, L.132, S.133, S.134, H.144, E.146, M.147, D.202, D.233, E.235, L.236, R.297, Y.299 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.114 Hydrogen bonds: A:L.132, A:S.134, A:E.146 Water bridges: A:H.144, A:D.202, A:R.297, A:R.297 Salt bridges: A:D.202, A:D.233, A:R.297

1 x FE2: FE (II) ION(Non-covalent)

FE2.2: 4 residues within 4Å: Chain A: H.144, E.146, H.279 Ligands: AKG.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.144, A:E.146, A:H.279, H2O.11

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: R.191, R.195 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.191, A:R.191, A:R.191, A:R.191 Salt bridges: A:R.191, A:R.195 SO4.4: 3 residues within 4Å: Chain A: R.151, R.323, G.324 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.324, A:G.324 Water bridges: A:R.323, A:R.323, A:R.323 Salt bridges: A:R.151, A:R.323 SO4.5: 2 residues within 4Å: Chain A: P.21, R.22 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.22 Water bridges: A:L.20, A:T.23 Salt bridges: A:R.22

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.6: 12 residues within 4Å: Chain A: V.123, L.141, H.144, E.146, L.159, T.172, H.279, R.281, R.293, L.295, R.297 Ligands: FE2.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.141, A:L.159 Hydrogen bonds: A:T.172 Water bridges: A:R.281 Salt bridges: A:H.279, A:R.293, A:R.297

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 3 residues within 4Å: Chain A: L.183, K.253, E.257 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.183, A:L.183, A:K.253 Water bridges: A:A.254 GOL.8: 5 residues within 4Å: Chain A: P.77, P.86, D.88, R.89, S.90 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.88, A:S.90 Water bridges: A:S.90 GOL.9: 3 residues within 4Å: Chain A: D.194, R.195, R.196 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.196, A:R.196, A:R.196 Water bridges: A:R.195 GOL.10: 2 residues within 4Å: Chain A: R.168, Y.263 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Structural origins of the selectivity of the trifunctional oxygenase clavaminic acid synthase. Nat.Struct.Biol. (2000)

Release Date

2000-07-06

Peptides

CLAVAMINATE SYNTHASE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CLAVAMINATE SYNTHASE 1

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