SMTL ID : 9jah.2 (1 other biounit)

GMPK in complex with GMP, ATPgammaS and K+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.1: 19 residues within 4Å: Chain A: S.14, 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.149 Ligands: AGS.3, K.4 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:S.14, A:K.18, A:K.18, A:S.38, A:Y.54, A:Y.82, A:D.104, A:G.107 Salt bridges: A:R.42, A:R.45, A:E.73, A:D.104, A:R.149

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: L.22, L.26, F.35, K.52, D.53 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.53

1 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.3: 17 residues within 4Å: Chain A: P.13, S.14, G.15, A.16, G.17, K.18, S.19, T.20, R.45, R.134, R.138, R.149, N.172, D.173, S.174, L.175 Ligands: 5GP.1 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.15, A:A.16, A:G.17, A:K.18, A:K.18, A:S.19, A:S.19, A:S.19, A:T.20, A:T.20, A:R.138, A:N.172, A:D.173 Salt bridges: A:K.18, A:R.138 pi-Cation interactions: A:R.134

1 x K: POTASSIUM ION(Non-covalent)

K.4: 4 residues within 4Å: Chain A: S.38, Y.54, D.102 Ligands: 5GP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.38, A:D.102

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
D

Guanylate kinase

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