SMTL ID : 4dlt.1 (1 other biounit)

H-Ras Set 2 Ca(OAc)2, on

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

GNP.1: 25 residues within 4Å: Chain A: A.11, G.12, G.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, D.30, E.31, Y.32, P.34, T.35, A.59, G.60, N.116, K.117, D.119, L.120, S.145, A.146, K.147 Ligands: MG.3 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:G.13, A:V.14, A:G.15, A:K.16, A:K.16, A:S.17, A:A.18, A:V.29, A:Y.32, A:T.35, A:G.60, A:N.116, A:K.117, A:K.117, A:A.146, A:K.147 Water bridges: A:S.17, A:S.17, A:D.33, A:T.35, A:T.35, A:Q.61, A:Q.61 Salt bridges: A:D.119 pi-Stacking: A:F.28, A:F.28

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: F.28, D.30 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.28, A:D.30, H2O.1, H2O.5 CA.4: 3 residues within 4Å: Chain A: D.107, Y.137 Ligands: ACT.6 5 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.107, A:Y.137, H2O.3, H2O.5, ACT.6

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.3: 4 residues within 4Å: Chain A: S.17, T.35, D.57 Ligands: GNP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.17, A:T.35, H2O.1, H2O.4 MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 7 residues within 4Å: Chain A: R.97, K.101, D.107, D.108, V.109, M.111 Ligands: CA.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.97, A:K.101 Hydrogen bonds: A:V.109 Salt bridges: A:R.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holzapfel, G. et al., Shift in the Equilibrium between On and Off States of the Allosteric Switch in Ras-GppNHp Affected by Small Molecules and Bulk Solvent Composition. Biochemistry (2012)

Release Date

2012-08-08

Peptides

GTPase HRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase HRas

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