SMTL ID : 3vex.1

Crystal structure of the O-carbamoyltransferase TobZ H14N variant in complex with carbamoyl adenylate intermediate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

FE2.1: 5 residues within 4Å: Chain A: H.120, H.124, D.143, D.344 Ligands: CA0.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.120, A:H.124, A:D.143, A:D.344

1 x CA0: 5'-O-[(S)-(carbamoyloxy)(hydroxy)phosphoryl]adenosine(Non-covalent)

CA0.2: 21 residues within 4Å: Chain A: W.77, H.120, H.124, D.143, G.144, Q.145, G.174, F.175, Y.177, E.178, P.191, G.192, M.195, L.291, G.316, V.317, L.319, N.320, S.343, D.344 Ligands: FE2.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.144, A:Q.145, A:Q.145, A:E.178, A:E.178, A:G.316, A:N.320, A:D.344, A:D.344 Water bridges: A:N.20 Salt bridges: A:H.124

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

SO4.3: 6 residues within 4Å: Chain A: R.451, P.456, F.457, R.504, T.535, S.536 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:S.536, A:S.536 Water bridges: A:R.455, A:R.455, A:R.504, A:R.504, A:R.504, A:R.504, A:R.504, A:R.504, A:S.536 Salt bridges: A:K.449, A:R.451, A:R.504 SO4.4: 5 residues within 4Å: Chain A: K.45, R.455, N.538, R.540, G.541 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.538, A:G.541 Water bridges: A:K.45, A:K.193, A:K.193 Salt bridges: A:K.45, A:K.193, A:R.455

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 8 residues within 4Å: Chain A: R.441, P.456, F.457, P.494, S.495, V.496, V.497, H.498 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.441, A:F.457, A:F.457, A:P.494 EDO.6: 6 residues within 4Å: Chain A: Y.130, G.159, V.357, D.361, R.362, I.363 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.363, A:I.363 EDO.7: 5 residues within 4Å: Chain A: G.409, S.437, T.439, M.440, H.443 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.437, A:T.439 Water bridges: A:G.409

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Parthier, C. et al., The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction. Angew.Chem.Int.Ed.Engl. (2012)

Release Date

2012-01-25

Peptides

O-carbamoyltransferase TobZ: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

O-carbamoyltransferase TobZ