2EFD

Ara7/AtVps9a

Summary for 2EFD

Related2fec 2efe 2efh
DescriptorSimilarity to vacuolar protein sorting-associated protein VPS9, Small GTP-binding protein-like (2 entities in total)
Functional Keywordsgef, gtpase, vps9, rab5, nucleotide, transport protein
Biological sourceArabidopsis thaliana (thale cress)
Cellular locationEarly endosome membrane Q9SN68
Total number of polymer chains4
Total molecular weight100111.5
Authors
Uejima, T.,Ihara, K.,Wakatsuki, S. (deposition date: 2007-02-22, release date: 2008-02-26, Last modification date: 2011-12-21)
Primary citation
Uejima, T.,Ihara, K.,Goh, T.,Ito, E.,Sunada, M.,Ueda, T.,Nakano, A.,Wakatsuki, S.
GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system
J.Biol.Chem., 285:36689-36697, 2010
PubMed: 20833725 (PDB entries with the same primary citation)
DOI: 10.1074/jbc.M110.152132
MImport into Mendeley
Experimental method
X-RAY DIFFRACTION (3 Å)
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Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliers0.34781.9%8.9%2.5%MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 2efd
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Molmil generated image of 2efd
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Molmil generated image of 2efd
rotated about y axis by 90°

More Biological unit images

Molmil generated image of 2efd
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Molmil generated image of 2efd
rotated about x axis by 90°
Molmil generated image of 2efd
rotated about y axis by 90°
(*)In the case of coarse surface representation, the asymmetric unit is shown as red ribbon representation.
Coordinate files for Biological unit (2efd.pdb1.gz [64.17 KB])
Coordinate files for Biological unit (2efd.pdb2.gz [64.04 KB])
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