SMTL ID : 3gf3.1

Glutaconyl-coA decarboxylase A subunit from Clostridium symbiosum co-crystallized with glutaconyl-coA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

4 x COO: CROTONYL COENZYME A(Non-covalent)

COO.1: 23 residues within 4Å: Chain A: I.50, T.51, R.59, M.118, A.119, S.151, G.152, V.153, E.154, F.155, Y.162, T.192, P.194, A.195, G.196 Chain B: A.459, A.460, Y.463, V.487, M.488, M.497, R.500, K.501 20 PLIP interactions: 5 interactions with chain B, 15 interactions with chain A Hydrophobic interactions: B:A.460, B:Y.463, B:V.487, A:A.119, A:V.153, A:Y.162, A:A.195 Salt bridges: B:R.500, B:K.501 Hydrogen bonds: A:R.59, A:S.151, A:S.151, A:V.153, A:V.153, A:F.155, A:G.196 Water bridges: A:A.119, A:A.119, A:G.221, A:G.221 COO.3: 23 residues within 4Å: Chain A: A.459, A.460, Y.463, V.487, M.488, M.497, R.500, K.501 Chain B: I.50, T.51, R.59, M.118, A.119, S.151, G.152, V.153, E.154, F.155, Y.162, T.192, P.194, A.195, G.196 21 PLIP interactions: 5 interactions with chain A, 16 interactions with chain B Hydrophobic interactions: A:A.460, A:Y.463, A:V.487, B:A.119, B:V.153, B:Y.162, B:A.195 Salt bridges: A:R.500, A:K.501 Hydrogen bonds: B:T.51, B:R.59, B:S.151, B:S.151, B:V.153, B:V.153, B:F.155, B:G.196 Water bridges: B:A.119, B:A.119, B:G.221, B:G.221 COO.5: 23 residues within 4Å: Chain C: I.50, T.51, R.59, M.118, A.119, S.151, G.152, V.153, E.154, F.155, Y.162, T.192, P.194, A.195, G.196 Chain D: A.459, A.460, Y.463, V.487, M.488, M.497, R.500, K.501 20 PLIP interactions: 15 interactions with chain C, 5 interactions with chain D Hydrophobic interactions: C:A.119, C:V.153, C:Y.162, C:A.195, D:A.460, D:Y.463, D:V.487 Hydrogen bonds: C:R.59, C:S.151, C:S.151, C:V.153, C:V.153, C:F.155, C:G.196 Water bridges: C:T.51, C:A.119, C:G.221, C:G.221 Salt bridges: D:R.500, D:K.501 COO.7: 23 residues within 4Å: Chain C: A.459, A.460, Y.463, V.487, M.488, M.497, R.500, K.501 Chain D: I.50, T.51, R.59, M.118, A.119, S.151, G.152, V.153, E.154, F.155, Y.162, T.192, P.194, A.195, G.196 21 PLIP interactions: 16 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:A.119, D:V.153, D:Y.162, D:A.195, C:A.460, C:Y.463, C:V.487 Hydrogen bonds: D:T.51, D:R.59, D:S.151, D:S.151, D:V.153, D:V.153, D:F.155, D:G.196 Water bridges: D:A.119, D:A.119, D:G.221, D:G.221 Salt bridges: C:R.500, C:K.501

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain A: G.419, I.420, A.459, A.460, A.461 Chain B: V.217 Ligand excluded by PLIP CL.4: 6 residues within 4Å: Chain A: V.217 Chain B: G.419, I.420, A.459, A.460, A.461 Ligand excluded by PLIP CL.6: 6 residues within 4Å: Chain C: G.419, I.420, A.459, A.460, A.461 Chain D: V.217 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain C: V.217 Chain D: G.419, I.420, A.459, A.460, A.461 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kress, D. et al., An asymmetric model for Na+-translocating glutaconyl-CoA decarboxylases. J.Biol.Chem. (2009)

Release Date

2009-07-28

Peptides

Glutaconyl-CoA decarboxylase subunit A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Glutaconyl-CoA decarboxylase subunit A

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