SMTL ID : 6npb.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 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 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.204, A:D.206, A:H.347, H2O.2 FE2.5: 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.10, H2O.14, H2O.16

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

AKG.2: 13 residues within 4Å: Chain A: F.183, V.185, A.195, L.201, H.204, D.206, Q.217, L.219, H.347, R.349, R.358, L.360 Ligands: FE2.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.185, A:L.201 Water bridges: A:R.294 Salt bridges: A:H.347, A:R.349, A:R.358

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

SO4.3: 7 residues within 4Å: Chain A: N.193, H.204, D.206, N.207, Y.209, N.292, R.294 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.193, A:N.193, A:N.207, A:N.207, A:Y.209, A:N.292 Water bridges: A:R.294, A:R.294, B:Q.53, B:Q.53 Salt bridges: A:R.294 SO4.4: 3 residues within 4Å: Chain A: L.199, G.200, G.351 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.200, A:G.351 Water bridges: A:Y.352 SO4.6: 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:Y.209, B:N.292, B:N.292 Water bridges: B:R.294 Salt bridges: B:R.294 SO4.7: 4 residues within 4Å: Chain A: S.112, P.113, D.114 Chain B: R.260 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:S.112 Water bridges: B:R.260, B:R.260 Salt bridges: B:R.260

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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