SMTL ID : 1doa.2 (1 other biounit)

Structure of the rho family gtp-binding protein cdc42 in complex with the multifunctional regulator rhogdi

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-oligomer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: T.20, T.38, D.60, T.61 Ligands: GDP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.20, A:T.38, H2O.1, H2O.37 MG.2: 5 residues within 4Å: Chain A: H.3 Chain C: H.3 Chain E: H.3 Ligands: MG.6, MG.10 5 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:H.3, E:H.3, A:H.3, H2O.8, H2O.58 MG.5: 5 residues within 4Å: Chain C: T.20, T.38, D.60, T.61 Ligands: GDP.7 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:T.20, C:T.38, H2O.51, H2O.87 MG.6: 5 residues within 4Å: Chain A: H.3 Chain C: H.3 Chain E: H.3 Ligands: MG.2, MG.10 5 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:H.3, E:H.3, A:H.3, H2O.8, H2O.58 MG.9: 5 residues within 4Å: Chain E: T.20, T.38, D.60, T.61 Ligands: GDP.11 4 PLIP interactions: 2 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:T.20, E:T.38, H2O.101, H2O.137 MG.10: 5 residues within 4Å: Chain A: H.3 Chain C: H.3 Chain E: H.3 Ligands: MG.2, MG.6 5 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:H.3, E:H.3, A:H.3, H2O.8, H2O.58

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

GDP.3: 16 residues within 4Å: Chain A: D.14, G.15, A.16, V.17, G.18, K.19, T.20, C.21, F.31, V.36, Q.119, D.121, S.161, A.162, L.163 Ligands: MG.1 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:A.16, A:V.17, A:G.18, A:K.19, A:T.20, A:T.20, A:C.21, A:A.162, A:L.163 Water bridges: A:P.37 Salt bridges: A:K.19, A:D.121 pi-Stacking: A:F.31, A:F.31 GDP.7: 16 residues within 4Å: Chain C: D.14, G.15, A.16, V.17, G.18, K.19, T.20, C.21, F.31, V.36, Q.119, D.121, S.161, A.162, L.163 Ligands: MG.5 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:A.16, C:V.17, C:G.18, C:K.19, C:T.20, C:T.20, C:C.21, C:A.162, C:L.163 Water bridges: C:P.37 Salt bridges: C:K.19, C:D.121 pi-Stacking: C:F.31, C:F.31 GDP.11: 16 residues within 4Å: Chain E: D.14, G.15, A.16, V.17, G.18, K.19, T.20, C.21, F.31, V.36, Q.119, D.121, S.161, A.162, L.163 Ligands: MG.9 14 PLIP interactions: 14 interactions with chain E Hydrogen bonds: E:A.16, E:V.17, E:G.18, E:K.19, E:T.20, E:T.20, E:C.21, E:A.162, E:L.163 Water bridges: E:P.37 Salt bridges: E:K.19, E:D.121 pi-Stacking: E:F.31, E:F.31

3 x GER: GERAN-8-YL GERAN(Covalent)

GER.4: 13 residues within 4Å: Chain A: R.189, C.191 Chain B: I.29, L.90, L.92, Y.125, Q.145, T.147, D.155, A.186, Y.190, W.209, L.211 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:I.29, B:L.90, B:L.92, B:Y.125, B:T.147, B:A.186, B:Y.190, B:W.209, B:L.211 GER.8: 13 residues within 4Å: Chain C: R.189, C.191 Chain D: I.29, L.90, L.92, Y.125, Q.145, T.147, D.155, A.186, Y.190, W.209, L.211 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:I.29, D:L.90, D:L.92, D:Y.125, D:T.147, D:A.186, D:Y.190, D:W.209, D:L.211 GER.12: 13 residues within 4Å: Chain E: R.189, C.191 Chain F: I.29, L.90, L.92, Y.125, Q.145, T.147, D.155, A.186, Y.190, W.209, L.211 9 PLIP interactions: 9 interactions with chain F Hydrophobic interactions: F:I.29, F:L.90, F:L.92, F:Y.125, F:T.147, F:A.186, F:Y.190, F:W.209, F:L.211

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoffman, G.R. et al., Structure of the Rho family GTP-binding protein Cdc42 in complex with the multifunctional regulator RhoGDI. Cell(Cambridge,Mass.) (2000)

Release Date

2000-02-09

Peptides

PROTEIN (GTP-BINDING PROTEIN): ACE
PROTEIN (GDP-DISSOCIATION INHIBITOR 1): BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

PROTEIN (GTP-BINDING PROTEIN)

PROTEIN (GDP-DISSOCIATION INHIBITOR 1)

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