SMTL ID : 2b92.1

Crystal-structure of the N-terminal Large GTPase Domain of human Guanylate Binding protein 1 (hGBP1) in complex with GDP/AlF3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.63, T.86 Ligands: GDP.2, AF3.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.63, A:T.86 MG.4: 5 residues within 4Å: Chain B: S.63, T.86, D.108 Ligands: GDP.5, AF3.6 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:S.63, B:T.86

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

GDP.2: 19 residues within 4Å: Chain A: R.59, T.60, G.61, K.62, S.63, Y.64, L.78, G.79, S.80, R.194, D.195, R.251, P.252, L.258, L.261 Chain B: S.197, L.198 Ligands: MG.1, AF3.3 17 PLIP interactions: 15 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.59, A:T.60, A:G.61, A:K.62, A:S.63, A:S.63, A:Y.64, A:G.79, A:R.194, B:S.197, B:S.197 Water bridges: A:G.111, A:D.195 Salt bridges: A:R.59, A:R.59, A:K.62, A:D.195 GDP.5: 19 residues within 4Å: Chain A: S.197 Chain B: R.59, T.60, G.61, K.62, S.63, Y.64, L.78, G.79, S.80, R.194, D.195, R.251, P.252, L.258, A.259, L.261 Ligands: MG.4, AF3.6 19 PLIP interactions: 17 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.59, B:T.60, B:G.61, B:K.62, B:S.63, B:S.63, B:Y.64, B:G.79, B:T.86, B:R.194, A:S.197, A:S.197 Water bridges: B:G.111, B:R.194, B:D.195 Salt bridges: B:R.59, B:R.59, B:K.62, B:D.195

2 x AF3: ALUMINUM FLUORIDE(Non-covalent)

AF3.3: 10 residues within 4Å: Chain A: Y.58, R.59, K.62, S.63, S.84, H.85, T.86, G.111 Ligands: MG.1, GDP.2 No protein-ligand interaction detected (PLIP) AF3.6: 10 residues within 4Å: Chain B: Y.58, R.59, K.62, S.63, S.84, H.85, T.86, G.111 Ligands: MG.4, GDP.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A. et al., How guanylate-binding proteins achieve assembly-stimulated processive cleavage of GTP to GMP. Nature (2006)

Release Date

2006-03-07

Peptides

Interferon-induced guanylate-binding protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Interferon-induced guanylate-binding protein 1

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