SMTL ID : 4i1o.3 (3 other biounits)

Crystal structure of the Legionella pneumophila GAP domain of LepB in complex with Rab1b bound to GDP and BeF3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.23, T.41 Ligands: GDP.2, BEF.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.23, A:T.41, H2O.1

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

GDP.2: 23 residues within 4Å: Chain A: G.19, V.20, G.21, K.22, S.23, C.24, Y.34, E.36, S.37, Y.38, I.39, T.41, N.122, K.123, D.125, L.126, S.152, A.153, K.154 Chain B: H.99, R.128 Ligands: MG.1, BEF.3 24 PLIP interactions: 21 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:G.19, A:V.20, A:G.21, A:K.22, A:S.23, A:S.23, A:C.24, A:E.36, A:S.37, A:T.41, A:N.122, A:K.123, A:K.123, A:S.152, A:A.153, A:K.154 Water bridges: A:I.39, A:T.65, B:R.128 Salt bridges: A:K.22, A:D.125, B:R.128, B:R.128 pi-Stacking: A:Y.34

1 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)

BEF.3: 13 residues within 4Å: Chain A: S.18, G.19, K.22, S.23, S.40, T.41, T.65, A.66, G.67, Q.68 Chain B: R.128 Ligands: MG.1, GDP.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mihai Gazdag, E. et al., Mechanism of Rab1b deactivation by the Legionella pneumophila GAP LepB. Embo Rep. (2013)

Release Date

2013-01-16

Peptides

Ras-related protein Rab-1B: A
LepB: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Ras-related protein Rab-1B

LepB

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