SMTL ID : 7jkr.1

GTP-specific succinyl-CoA synthetase complexed with Mg-GMPPNP, phosphohistidine loop pointing towards nucleotide binding site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.64 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: Y.2, T.3, K.115, L.119, R.125, N.191, G.192, T.193, D.194, D.197 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.115, A:R.125, A:R.125, A:D.194, A:D.194, A:D.197

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.2: 25 residues within 4Å: Chain A: H.258 Chain B: Q.20, V.44, K.46, G.52, G.53, R.54, G.55, V.67, L.69, Q.92, A.108, L.109, D.110, I.111, E.114, G.137, V.138, E.204, N.206, P.207, F.219, D.220, K.222 Ligands: MG.3 19 PLIP interactions: 1 interactions with chain A, 18 interactions with chain B Hydrogen bonds: A:H.258, B:Q.20, B:K.46, B:G.53, B:R.54, B:R.54, B:R.54, B:G.55, B:L.109, B:L.109, B:L.109, B:I.111, B:E.114, B:E.114, B:V.138, B:N.206, B:K.222 Salt bridges: B:K.46, B:R.54

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain B: N.206, P.207, D.220, K.222 Ligands: GNP.2 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:N.206, B:D.220

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, J. et al., Second distinct conformation of the phosphohistidine loop in succinyl-CoA synthetase. Acta Crystallogr.,Sect.D (2021)

Release Date

2021-03-10

Peptides

Succinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial: A
Succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Succinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial

Succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial

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