SMTL ID : 4ip4.1

Crystal structure of l-fuconate dehydratase from Silicibacter sp. tm1040 liganded with Mg

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

homo-dimer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: G.22, D.24, P.30, Y.32, W.192, K.218, N.248, E.299, H.349, G.351 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.24, A:D.24, A:Y.32, A:K.218, A:N.248, A:G.351 Water bridges: A:D.246 GOL.2: 6 residues within 4Å: Chain A: L.281, G.282, A.285 Chain B: D.153, V.154, A.312 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.153 Water bridges: A:L.281 GOL.6: 9 residues within 4Å: Chain B: G.22, D.24, P.30, Y.32, W.192, K.218, N.248, H.349, G.351 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.24, B:K.218, B:N.248, B:G.351

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: K.216, K.218, D.246, E.272, E.299 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.246, A:E.272, A:E.299, H2O.7, H2O.10, H2O.10 MG.7: 4 residues within 4Å: Chain B: K.218, D.246, E.272, E.299 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.246, B:E.272, B:E.299, H2O.18, H2O.20, H2O.20

4 x CO2: CARBON DIOXIDE(Non-covalent)

CO2.4: 5 residues within 4Å: Chain A: A.166, A.167, P.169, G.170, R.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.170, A:R.174 CO2.5: 2 residues within 4Å: Chain A: G.85, I.146 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.86, A:D.147 CO2.8: 6 residues within 4Å: Chain B: A.166, A.167, E.168, P.169, G.170, R.174 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.170, B:R.174, B:R.174 CO2.9: 4 residues within 4Å: Chain B: G.85, R.89, I.146, D.147 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.86, B:I.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., Crystal structure of l-fuconate dehydratase from Silicibacter sp. tm1040 liganded with mg. To be Published

Release Date

2013-12-04

Peptides

Mandelate racemase/muconate lactonizing enzyme-like protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Mandelate racemase/muconate lactonizing enzyme-like protein

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