SMTL ID : 2y8e.2 (2 other biounits)

Crystal structure of D. melanogaster Rab6 GTPase bound to GMPPNP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.39 Å

Oligo State

monomer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: S.132, R.135 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.132, A:S.132 Salt bridges: A:R.135 SO4.2: 3 residues within 4Å: Chain A: Y.162, N.163, R.170 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.162, A:Y.162, A:N.163 Water bridges: A:R.170, A:R.170 Salt bridges: A:R.170

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.3: 24 residues within 4Å: Chain A: E.22, Q.23, S.24, V.25, G.26, K.27, T.28, S.29, F.39, D.40, N.41, Y.43, A.45, T.46, A.71, G.72, N.127, K.128, D.130, L.131, S.157, A.158, K.159 Ligands: MG.4 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:S.24, A:V.25, A:G.26, A:K.27, A:K.27, A:T.28, A:T.28, A:S.29, A:S.29, A:D.40, A:Y.43, A:Q.44, A:T.46, A:T.46, A:G.72, A:N.127, A:K.128, A:K.128, A:A.158, A:K.159 Water bridges: A:T.46, A:Q.73, A:D.95 Salt bridges: A:D.130 pi-Stacking: A:F.39, A:F.39 pi-Cation interactions: A:K.128

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: T.28, T.46 Ligands: GNP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.28, A:T.46, H2O.2, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Walden, M. et al., Structure of the Drosophila Melanogaster Rab6 Gtpase at 1.4 A Resolution. Acta Crystallogr.,Sect.F (2011)

Release Date

2011-07-06

Peptides

RAB-PROTEIN 6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

RAB-PROTEIN 6

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