SMTL ID : 7c1o.1

Crystal structure of Aquifex aeolicus Era Y63A bound to GDP.AlF4-

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

monomer

Ligands

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.1: 13 residues within 4Å: Chain A: P.19, N.20, K.23, K.41, A.42, G.43, T.44, T.45, P.67, G.68 Ligands: GDP.2, MG.5, K.6 No protein-ligand interaction detected (PLIP)

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

GDP.2: 19 residues within 4Å: Chain A: N.20, V.21, G.22, K.23, S.24, T.25, I.38, S.39, P.40, N.130, K.131, D.133, K.134, S.162, A.163, L.164 Ligands: ALF.1, MG.5, K.6 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:N.20, A:V.21, A:G.22, A:K.23, A:S.24, A:T.25, A:T.25, A:S.39, A:N.130, A:K.131, A:K.131, A:A.163, A:L.164 Water bridges: A:T.45, A:T.45, A:K.134, A:K.134 Salt bridges: A:K.23, A:D.133

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 6 residues within 4Å: Chain A: K.123, P.124, V.125, E.154, E.157, Y.179 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.157 Hydrogen bonds: A:V.125

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.4: 2 residues within 4Å: Chain A: H.149, P.153 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.149

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 4 residues within 4Å: Chain A: S.24, T.45 Ligands: ALF.1, GDP.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.24, A:T.45, H2O.1, H2O.2

1 x K: POTASSIUM ION(Non-covalent)

K.6: 6 residues within 4Å: Chain A: N.20, S.39, K.41, T.44 Ligands: ALF.1, GDP.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.39, A:K.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Batra, S. et al., Crystal structure of Aquifex aeolicus Era Y63A bound to GDP.AlF4-. To be published

Release Date

2021-05-12

Peptides

GTPase Era: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase Era