SMTL ID : 3rsl.1

H-Ras soaked in 90% R,S,R-bisfuranol: one of 10 in MSCS set

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

GNP.1: 28 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: RSF.4, RSF.5, MG.15 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: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:S.17, A:T.35, A:T.35, A:K.117 Salt bridges: A:D.119 pi-Stacking: A:F.28, A:F.28

13 x RSF: (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-ol(Non-covalent)

RSF.2: 5 residues within 4Å: Chain A: I.21, V.29, D.33, D.38, Y.40 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.38, A:Y.40 RSF.3: 3 residues within 4Å: Chain A: F.28, D.30, K.147 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.30 Salt bridges: A:K.147 RSF.4: 5 residues within 4Å: Chain A: D.30, E.31, Y.32 Ligands: GNP.1, RSF.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.32 RSF.5: 4 residues within 4Å: Chain A: F.28, D.30, K.147 Ligands: GNP.1 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.147 RSF.6: 7 residues within 4Å: Chain A: L.23, N.26, K.42, V.44, R.149, E.153, Y.157 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.149, A:R.149 Salt bridges: A:K.42, A:R.149 RSF.7: 3 residues within 4Å: Chain A: D.33, P.34 Ligands: RSF.14 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:D.33 RSF.8: 7 residues within 4Å: Chain A: G.12, G.13, Y.32, N.86, K.117 Ligands: RSF.4, RSF.12 No protein-ligand interaction detected (PLIP) RSF.9: 6 residues within 4Å: Chain A: E.37, T.58, A.59, M.72, Y.96, Q.99 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.99 RSF.10: 2 residues within 4Å: Chain A: Q.95, Q.99 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.99 Hydrogen bonds: A:Q.95 RSF.11: 3 residues within 4Å: Chain A: E.143, Q.150, G.151 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.151 RSF.12: 6 residues within 4Å: Chain A: A.11, G.12, N.86, K.88, S.89 Ligands: RSF.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.11, A:K.88 Hydrogen bonds: A:N.86 RSF.13: 4 residues within 4Å: Chain A: I.24, Q.25, Y.40, R.41 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.24 Hydrogen bonds: A:Q.25 RSF.14: 2 residues within 4Å: Chain A: P.34 Ligands: RSF.7 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.15: 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.1

3 x CA: CALCIUM ION(Non-covalent)

CA.16: 2 residues within 4Å: Chain A: F.28, D.30 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:F.28, A:D.30, H2O.1 CA.17: 2 residues within 4Å: Chain A: E.153, D.154 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.153, A:D.154 CA.18: 2 residues within 4Å: Chain A: R.102, D.105 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:R.102, A:D.105, A:D.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Buhrman, G. et al., Analysis of Binding Site Hot Spots on the Surface of Ras GTPase. J.Mol.Biol. (2011)

Release Date

2011-09-21

Peptides

GTPase HRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase HRas

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