SMTL ID : 6npc.1

X-ray crystal structure of TmpA, 2-trimethylaminoethylphosphonate hydroxylase, with Fe, 2OG, and 2-trimethylaminoethylphosphonate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

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

FE2.1: 4 residues within 4Å: Chain A: H.204, D.206, H.347 Ligands: AKG.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.204, A:D.206, A:H.347 FE2.4: 3 residues within 4Å: Chain B: H.204, D.206, H.347 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.204, B:D.206, B:H.347, H2O.16, H2O.17, H2O.19

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

AKG.2: 13 residues within 4Å: Chain A: F.183, V.185, L.201, H.204, D.206, Q.217, L.219, H.347, R.349, R.358, L.360 Ligands: FE2.1, KVV.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.185, A:L.201 Salt bridges: A:H.347, A:R.349, A:R.358

1 x KVV: N,N,N-trimethyl-2-phosphonoethan-1-aminium(Non-covalent)

KVV.3: 13 residues within 4Å: Chain A: Y.179, F.183, N.193, A.195, Y.196, H.204, D.206, N.207, Y.209, N.292, R.294, Y.364 Ligands: AKG.2 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Y.179, A:N.193, A:N.207, A:N.207, A:Y.209, A:Y.209, A:N.292, A:R.294, A:R.294 Salt bridges: A:D.206 pi-Cation interactions: A:Y.179, A:F.183 Water bridges: B:Q.53, B:Q.53

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

SO4.5: 6 residues within 4Å: Chain B: H.204, D.206, N.207, Y.209, N.292, R.294 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.207, B:N.207, B:N.292, B:N.292 Water bridges: B:R.294, B:R.294 Salt bridges: B:R.294

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rajakovich, L.J. et al., A New Microbial Pathway for Organophosphonate Degradation Catalyzed by Two Previously Misannotated Non-Heme-Iron Oxygenases. Biochemistry (2019)

Release Date

2019-03-06

Peptides

TmpA, 2-trimethylaminoethylphosphonate hydroxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TmpA, 2-trimethylaminoethylphosphonate hydroxylase

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