SMTL ID : 1s8f.1 (4 other biounits)

Crystal structure of Rab9 complexed to GDP reveals a dimer with an active conformation of switch II

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

monomer

Ligands

1 x SR: STRONTIUM ION(Non-functional Binders)

SR.1: 3 residues within 4Å: Chain A: S.23 Ligands: GDP.2, BEZ.5 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.23, H2O.1, H2O.1, H2O.1

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

GDP.2: 19 residues within 4Å: Chain A: D.17, G.18, G.19, V.20, G.21, K.22, S.23, S.24, F.34, D.64, N.126, K.127, D.129, I.130, S.156, A.157, K.158 Ligands: SR.1, BEZ.5 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:G.19, A:V.20, A:G.21, A:K.22, A:S.23, A:S.24, A:S.24, A:N.126, A:K.127, A:K.127, A:S.156, A:A.157, A:K.158 Water bridges: A:K.22, A:K.22, A:S.23, A:S.23, A:T.36, A:T.36, A:T.36, A:T.65 Salt bridges: A:K.22, A:D.129 pi-Stacking: A:F.34, A:F.34

3 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.3: 2 residues within 4Å: Chain A: R.72, S.73 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.72, A:R.72 Salt bridges: A:R.72 BEZ.4: 2 residues within 4Å: Chain A: I.42, R.70 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.42 Salt bridges: A:R.70 BEZ.5: 6 residues within 4Å: Chain A: H.40, T.41, I.42, Q.68 Ligands: SR.1, GDP.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.40, A:I.42 Water bridges: A:G.19, A:S.23, A:S.23, A:S.23, A:T.41, A:T.41, A:T.65, A:G.67 Salt bridges: A:H.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wittmann, J.G. et al., Crystal structure of Rab9 complexed to GDP reveals a dimer with an active conformation of switch II. Febs Lett. (2004)

Release Date

2004-06-11

Peptides

Ras-related protein Rab-9A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ras-related protein Rab-9A

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