SMTL ID : 3ufx.1 (5 other biounits)

Thermus aquaticus succinyl-CoA synthetase in complex with GDP-Mn2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

hetero-2-2-mer

Ligands

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

GDP.1: 16 residues within 4Å: Chain B: V.43, K.45, G.51, G.52, R.53, G.54, V.59, A.93, V.94, I.96, E.99, G.122, N.190, P.191, D.204 Ligands: MN.2 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:G.52, B:R.53, B:G.54, B:V.94, B:V.94, B:V.94, B:E.99, B:G.122, B:D.204 Water bridges: B:G.52, B:K.55 Salt bridges: B:K.45, B:R.53, B:R.53 GDP.3: 17 residues within 4Å: Chain D: V.43, K.45, G.51, G.52, R.53, G.54, V.59, E.92, A.93, V.94, I.96, E.99, G.122, N.190, P.191, D.204 Ligands: MN.4 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:G.52, D:R.53, D:G.54, D:V.94, D:V.94, D:V.94, D:E.99, D:G.122 Water bridges: D:I.96 Salt bridges: D:K.45, D:R.53, D:R.53

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 3 residues within 4Å: Chain B: N.190, D.204 Ligands: GDP.1 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:N.190, B:D.204 MN.4: 3 residues within 4Å: Chain D: N.190, D.204 Ligands: GDP.3 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:N.190, D:D.204

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joyce, M.A. et al., Biochemical and structural characterization of the GTP-preferring succinyl-CoA synthetase from Thermus aquaticus. Acta Crystallogr.,Sect.D (2012)

Release Date

2012-06-27

Peptides

succinyl-CoA synthetase alpha subunit: AC
Succinyl-CoA synthetase beta subunit: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
D

B
B

D
E

succinyl-CoA synthetase alpha subunit

Succinyl-CoA synthetase beta subunit

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