SMTL ID : 6xbq.1

Streptomyces coelicolor methylmalonyl-CoA epimerase in complex with carboxy-carba(dethia)-CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

homo-dimer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 5 residues within 4Å: Chain A: H.7, Q.60, H.84, E.134 Ligands: CMX.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.7, A:H.84, A:E.134, H2O.1 CO.5: 5 residues within 4Å: Chain B: H.7, Q.60, H.84, E.134 Ligands: CMX.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.7, B:H.84, B:E.134, H2O.8

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

SO4.2: 3 residues within 4Å: Chain A: H.13, G.79, E.80 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.80 Water bridges: A:G.79, A:E.80, A:E.80, B:K.126 Salt bridges: A:H.13 SO4.3: 3 residues within 4Å: Chain A: R.23, A.24 Chain B: K.102 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.23, B:K.102 SO4.6: 3 residues within 4Å: Chain B: H.13, G.79, E.80 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.80 Water bridges: B:G.79, A:K.126 Salt bridges: B:H.13 SO4.7: 3 residues within 4Å: Chain A: K.102 Chain B: R.23, A.24 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:R.23, A:K.102

2 x CMX: CARBOXYMETHYLDETHIA COENZYME *A(Non-covalent)

CMX.4: 18 residues within 4Å: Chain A: Q.39, Q.60, A.70, V.71, K.73, W.74, H.83, H.84, L.107, Y.108, I.120, F.122, P.125, K.126, G.130, L.132, E.134 Ligands: CO.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.107, A:F.122, A:F.122, A:L.132 Hydrogen bonds: A:Q.39, A:H.83, A:L.132 Water bridges: A:Q.39, A:W.74, A:K.77 Salt bridges: A:K.73, A:K.73, A:H.84, A:K.126 CMX.8: 18 residues within 4Å: Chain B: Q.39, Q.60, A.70, V.71, K.73, W.74, H.83, H.84, L.107, Y.108, I.120, F.122, P.125, K.126, G.130, L.132, E.134 Ligands: CO.5 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.107, B:F.122, B:F.122, B:L.132 Hydrogen bonds: B:Q.39, B:H.83, B:L.132 Water bridges: B:Q.60, B:Q.60, B:Q.60, B:W.74, B:K.77, B:Y.108 Salt bridges: B:K.73, B:K.73, B:H.84, B:K.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stunkard, L.M. et al., Streptomyces coelicolor methylmalonyl-CoA epimerase in complex with carboxy-carba(dethia)-CoA. To Be Published

Release Date

2020-07-01

Peptides

Methylmalonyl-CoA epimerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Methylmalonyl-CoA epimerase

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