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

Set 1 CaCl2/DTT, ordered off

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

monomer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 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.6 CA.5: 2 residues within 4Å: Chain A: R.102, D.105 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:R.102, A:D.105 CA.6: 1 residues within 4Å: Chain A: G.138 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.138, H2O.5, H2O.7, H2O.7, H2O.7

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

MG.2: 3 residues within 4Å: Chain A: S.17, T.35 Ligands: GNP.8 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.17, A:T.35, H2O.1, H2O.6 MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.4: 5 residues within 4Å: Chain A: R.68, D.92, Q.95, Y.96, Q.99 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.68, A:D.92 Water bridges: A:R.68, A:Y.96 DTT.7: 3 residues within 4Å: Chain A: Y.32, P.34, Q.61 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.33

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

GNP.8: 26 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, Q.61, N.116, K.117, D.119, L.120, S.145, A.146, K.147 Ligands: MG.2 24 PLIP interactions: 24 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:Q.61, A:N.116, A:K.117, A:K.117, A:A.146, A:K.147 Water bridges: A:S.17, A:S.17, A:T.35, A:T.35 Salt bridges: A:D.119 pi-Stacking: A:F.28, A:F.28

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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