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2BCG

Structure of doubly prenylated Ypt1:GDI complex

Summary for 2BCG
Entry DOI10.2210/pdb2bcg/pdb
Related1ukv
DescriptorSecretory pathway GDP dissociation inhibitor, GTP-binding protein YPT1, GERAN-8-YL GERAN, ... (7 entities in total)
Functional Keywordsrabgtpase, geranylgeranylation, vesicular transport, protein transport
Biological sourceSaccharomyces cerevisiae (baker's yeast)
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Cellular locationCytoplasm : P39958
Endoplasmic reticulum membrane ; Peripheral membrane protein : P01123
Total number of polymer chains2
Total formula weight75891.36
Authors
Pylypenko, O.,Rak, A.,Alexandrov, K. (deposition date: 2005-10-19, release date: 2006-01-17, Last modification date: 2023-08-23)
Primary citationPylypenko, O.,Rak, A.,Durek, T.,Kushnir, S.,Dursina, B.E.,Thomae, N.H.,Constantinescu, A.T.,Brunsveld, L.,Watzke, A.,Waldmann, H.,Goody, R.S.,Alexandrov, K.
Structure of doubly prenylated Ypt1:GDI complex and the mechanism of GDI-mediated Rab recycling
Embo J., 25:13-23, 2006
Cited by
PubMed Abstract: In eukaryotic cells Rab/Ypt GTPases represent a family of key membrane traffic controllers that associate with their targeted membranes via C-terminally conjugated geranylgeranyl groups. GDP dissociation inhibitor (GDI) is a general and essential regulator of Rab recycling that extracts prenylated Rab proteins from membranes at the end of their cycle of activity and facilitates their delivery to the donor membranes. Here, we present the structure of a complex between GDI and a doubly prenylated Rab protein. We show that one geranylgeranyl residue is deeply buried in a hydrophobic pocket formed by domain II of GDI, whereas the other lipid is more exposed to solvent and is skewed across several atoms of the first moiety. Based on structural information and biophysical measurements, we propose mechanistic and thermodynamic models for GDI and Rab escort protein-mediated interaction of RabGTPase with intracellular membranes.
PubMed: 16395334
DOI: 10.1038/sj.emboj.7600921
PDB entries with the same primary citation
Experimental method
X-RAY DIFFRACTION (1.48 Å)
Structure validation

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