SMTL ID : 4xc8.1

Isobutyryl-CoA mutase fused with bound butyryl-CoA, GDP, and Mg and without cobalamin (apo-IcmF/GDP)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.25 Å

Oligo State

homo-dimer

Ligands

2 x BCO: Butyryl Coenzyme A(Non-covalent)

BCO.1: 25 residues within 4Å: Chain A: F.605, F.607, K.608, R.609, R.616, F.618, R.642, S.644, S.695, S.697, T.699, R.748, T.750, Q.752, Y.792, H.800, S.841, F.843, R.876, K.881, Y.882, H.883, Q.885, N.916, S.917 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:F.618, A:Y.792, A:K.881 Hydrogen bonds: A:F.607, A:S.644, A:S.695, A:S.697, A:Q.752, A:Y.792, A:S.841, A:S.841 Salt bridges: A:R.609, A:R.609, A:R.616, A:R.642, A:R.748, A:R.748, A:R.876, A:K.881, A:K.881 pi-Stacking: A:F.605, A:F.605 BCO.5: 7 residues within 4Å: Chain B: F.605, F.607, R.609, Y.792, S.841, N.916, S.917 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:N.916 Hydrogen bonds: B:F.607, B:S.841, B:R.876 pi-Stacking: B:F.605, B:F.605

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.2: 19 residues within 4Å: Chain A: T.237, G.239, A.240, G.241, K.242, S.243, S.244, D.282, R.285, E.330, N.377, K.378, D.380, Q.415, A.416, S.417, E.993, N.1112 Ligands: MG.3 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:G.239, A:A.240, A:G.241, A:K.242, A:S.243, A:S.244, A:S.244, A:N.377, A:K.378, A:K.378, A:A.416, A:S.417, A:S.417, A:N.1112 Salt bridges: A:K.242, A:R.285, A:D.380, A:E.993 GDP.6: 18 residues within 4Å: Chain B: T.237, G.239, A.240, G.241, K.242, S.243, S.244, R.285, E.330, N.377, K.378, D.380, Q.415, A.416, S.417, E.993, N.1112 Ligands: MG.7 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:G.239, B:A.240, B:G.241, B:K.242, B:S.243, B:S.244, B:S.244, B:E.330, B:N.377, B:K.378, B:K.378, B:A.416, B:S.417, B:S.417, B:N.1112 Salt bridges: B:K.242, B:R.285, B:D.380, B:E.993

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 6 residues within 4Å: Chain A: S.243, G.281, D.282, E.330 Ligands: GDP.2, MG.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.243, A:D.282 MG.4: 7 residues within 4Å: Chain A: I.268, D.269, D.282, E.330, T.331, S.332 Ligands: MG.3 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:I.268, A:D.269, A:D.282, A:D.282, A:E.330 MG.7: 6 residues within 4Å: Chain B: S.243, G.281, D.282, E.330 Ligands: GDP.6, MG.8 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:S.243, B:D.282 MG.8: 6 residues within 4Å: Chain B: I.268, D.269, D.282, E.330, T.331 Ligands: MG.7 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:I.268, B:D.269, B:D.282, B:D.282, B:E.330

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jost, M. et al., Visualization of a radical B12 enzyme with its G-protein chaperone. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-02-11

Peptides

Isobutyryl-CoA mutase fused: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Isobutyryl-CoA mutase fused

Related Entries With Identical Sequence