SMTL ID : 1n6k.1

Crystal Structure of Human Rab5a A30P mutant complex with GDP and aluminum fluoride

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.20, T.38 Ligands: GDP.2, AF3.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.20, A:T.38, H2O.1, H2O.1

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

GDP.2: 20 residues within 4Å: Chain A: S.15, P.16, V.17, G.18, K.19, S.20, S.21, F.31, H.32, E.33, Q.35, N.119, K.120, D.122, L.123, S.149, A.150, K.151 Ligands: MG.1, AF3.3 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:V.17, A:G.18, A:K.19, A:S.20, A:S.21, A:S.21, A:H.32, A:N.119, A:K.120, A:K.120, A:A.150, A:K.151 Water bridges: A:S.20, A:E.33, A:E.33, A:Q.35, A:Q.35, A:T.38, A:T.38, A:G.64, A:K.151 Salt bridges: A:K.19, A:D.122 pi-Stacking: A:F.31, A:F.31

1 x AF3: ALUMINUM FLUORIDE(Non-covalent)

AF3.3: 9 residues within 4Å: Chain A: S.15, K.19, S.37, T.38, T.62, A.63, G.64 Ligands: MG.1, GDP.2 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.15, H2O.1

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.4: 6 residues within 4Å: Chain A: G.1, C.49, D.51, D.52, T.53, T.54 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.1, A:D.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, G. et al., High Resolution Crystal Structures of Human Rab5a and Five Mutants with Substitutions in the Catalytically Important Phosphate-Binding Loop. J.Biol.Chem. (2003)

Release Date

2002-11-27

Peptides

Ras-related protein Rab-5A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ras-related protein Rab-5A

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