SMTL ID : 6p0m.1

Crystal structure of GDP-bound human RalA in a covalent complex with aryl sulfonyl fluoride compounds.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x NLM: 4-[(3-chloropyridin-2-yl)sulfamoyl]benzene-1-sulfonic acid(Covalent)

NLM.1: 10 residues within 4Å: Chain A: A.48, L.67, T.69, A.70, G.71, Q.72, E.73, R.79, Y.82, F.83 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:A.48, A:T.69, A:E.73, A:R.79, A:Y.82, A:F.83 Hydrogen bonds: A:A.70, A:G.71, A:Q.72, A:E.73

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: K.27, S.28, Y.43, P.45 Ligands: GDP.4 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.28, H2O.2, H2O.2, H2O.2, H2O.2

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 2 residues within 4Å: Chain A: D.49, S.50 Ligand excluded by PLIP

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

GDP.4: 20 residues within 4Å: Chain A: S.22, G.23, G.24, V.25, G.26, K.27, S.28, A.29, F.39, V.40, E.41, Y.43, N.127, K.128, D.130, L.131, S.157, A.158, K.159 Ligands: CA.2 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:S.22, A:G.24, A:V.25, A:G.26, A:K.27, A:S.28, A:A.29, A:E.41, A:N.127, A:K.128, A:K.128, A:S.157, A:A.158, A:K.159 Water bridges: A:K.27, A:S.28, A:Y.43 Salt bridges: A:K.27, A:D.130 pi-Stacking: A:F.39, A:F.39 pi-Cation interactions: A:K.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bum-Erdene, K. et al., Small-molecule covalent bond formation at tyrosine creates a binding site and inhibits activation of Ral GTPases. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-03-04

Peptides

Ras-related protein Ral-A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Ras-related protein Ral-A

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