SMTL ID : 9jaj.1 (1 other biounit)

GMPK in complex with GDP and ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

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

GDP.1: 20 residues within 4Å: Chain A: S.14, G.15, K.18, S.38, R.42, R.45, Y.54, E.73, A.75, F.77, Y.82, G.83, T.84, D.102, V.103, D.104, G.107, R.138, R.149 Ligands: ADP.2 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:S.14, A:K.18, A:K.18, A:S.38, A:Y.54, A:T.84, A:D.104 Salt bridges: A:R.42, A:R.45, A:R.45, A:E.73, A:D.104, A:R.138, A:R.149, A:R.149

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 14 residues within 4Å: Chain A: P.13, S.14, G.15, A.16, G.17, K.18, S.19, T.20, R.134, R.138, N.172, D.173, L.175 Ligands: GDP.1 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:G.15, A:A.16, A:G.17, A:K.18, A:S.19, A:S.19, A:T.20, A:R.134, A:R.134, A:R.138, A:N.172, A:D.173 Water bridges: A:S.19, A:S.19 Salt bridges: A:K.18, A:R.138 pi-Cation interactions: A:R.134

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: S.19, L.26, F.35, D.53 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.19, A:D.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, L. et al., Comprehensive profiling of the catalytic conformations of human Guanylate kinase. To Be Published

Release Date

2025-09-03

Peptides

Guanylate kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Guanylate kinase

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