Uniprot accession / id : O70492  OR   Uniprot accession / id : O60493
 
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Entry Information
Entry status  (1)
REL
(7)
 
Experimental methods  (3)
X-ray diffraction
(5)
Electron Microscopy
(1)
Solution NMR
(1)
 
Authors  (34)
Bonifacino JS
(4)
Gershlick D
(4)
Gershlick DC
(4)
Hierro A
(4)
Lucas M
(4)
Rojas AL
(4)
Vidaurrazaga A
(4)
Arrowsmith CH
(1)
Bountra C
(1)
Briggs JAG
(1)
Canning P
(1)
Edwards AM
(1)
Froese DS
(1)
Gruenberg J
(1)
Gruenberg JJG
(1)
Kaur J
(1)
Kaur JJK
(1)
Kiyani W
(1)
Kovtun O
(1)
Krojer T
(1)
Leneva N
(1)
Lenoir M
(1)
Lenoir MML
(1)
Morado DR
(1)
Moreau D
(1)
Overduin M
(1)
Overduin MMO
(1)
Owen DJ
(1)
Rajesh S
(1)
Rajesh SSR
(1)
Strain-Damerell C
(1)
Ustunel C
(1)
Yue WW
(1)
von Delft F
(1)
 
Homo / hetero assembly  (2)
hetero
(5)
homo
(2)
 
Assembly composition  (2)
protein/protein complex
(5)
protein structure
(2)
 
Assembly polymer count  (4)
tetramer
(3)
monomer
(2)
octamer
(1)
trimer
(1)
 
Resolution distribution
2.5 - 3
(3)
3.0 - 3.5
(2)
9.0 - 9.5
(1)
 
Release year distribution
2010 - 2015
(1)
2015 - 2020
(5)
2020 - 2025
(1)
 
Journal  (4)
Cell
(4)
Nat Commun
(1)
Sci Adv
(1)
To be published
(1)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(7)
 
Organism name  (2)
Homo sapiens
(6)
Mus musculus
(1)
 
Molecule name  (2)
Protein SDP3
(7)
Sorting nexin-3
(7)
 
Molecule type  (1)
Protein
(7)
 
Gene names  (1)
SNX3
(7)
 
Interacting Molecules  (3)
Vacuolar protein sorting-associated protein 26A
(5)
Vacuolar protein sorting-associated protein 35
(5)
Natural resistance-associated macrophage protein 2
(4)
 
Interacting ligands  (4)
EDO : 1,2-ETHANEDIOL
(4)
GOL : GLYCEROL
(4)
SO4 : SULFATE ION
(4)
PIB : 2-(BUTANOYLOXY)-1-{[(HYDROXY{[2,3,4,6-TETRAHYDROXY-5-(PHOSPHONOOXY)CYCLOHEXYL]OXY}PHOSPHORYL)OXY]METHYL}ETHYL BUTANOATE
(1)
 
Function and Biology
Biological function  (10)
phosphatidylinositol binding
(7)
phosphatidylinositol phosphate binding
(7)
lipid binding
(6)
phosphatidylinositol-3,5-bisphosphate binding
(6)
phosphatidylinositol-3-phosphate binding
(6)
phosphatidylinositol-4-phosphate binding
(6)
phosphatidylinositol-5-phosphate binding
(6)
protein binding
(6)
protein phosphatase binding
(6)
retromer complex binding
(6)
 
Biological process  (14)
endocytic recycling
(6)
host-mediated suppression of symbiont invasion
(6)
intralumenal vesicle formation
(6)
late endosome to Golgi transport
(6)
membrane invagination
(6)
negative regulation of early endosome to late endosome transport
(6)
negative regulation of phagocytosis
(6)
negative regulation of protein catabolic process
(6)
negative regulation of protein transport
(6)
positive regulation of neuron projection development
(6)
protein to membrane docking
(6)
protein transport
(6)
regulation of Wnt signaling pathway
(6)
response to bacterium
(6)
 
Biological cell component  (12)
clathrin-coated vesicle
(6)
cytoplasm
(6)
cytoplasmic vesicle
(6)
cytosol
(6)
early endosome
(6)
early endosome membrane
(6)
early phagosome
(6)
endosome
(6)
endosome membrane
(6)
extracellular exosome
(6)
phagocytic vesicle
(6)
retromer complex
(6)
 
Sequence and Structure classification
CATH class  (1)
Alpha Beta
(6)
 
CATH topology  (1)
PX Domain
(6)
 
Pfam accession / name  (1)
PF00787 : PX
(7)
 
Representative Structures
Representative Structures
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Entries 1 to 7 of 7
Entries 1 to 7 of 7
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Structure of retromer VPS26-VPS35 subunits bound to SNX3
Lucas M, Gershlick D, Vidaurrazaga A, Rojas AL, Bonifacino JS, Hierro A
Cell (2016) [PMID: 27889239  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: GOL    SO4    EDO   
Modified residues: MSE    MSE   
PDBe complex ID: PDB-CPX-129993 (Preferred)   search this ID
PDBe-KB: O60493    O75436    Q96QK1   
X-ray diffraction
2.7Å resolution
Released: 7 Dec 2016
Model geometry
Fit model/data
5f0j
5f0j
5f0j
Structure of retromer VPS26-VPS35 subunits bound to SNX3 and DMT1
Lucas M, Gershlick D, Vidaurrazaga A, Rojas AL, Bonifacino JS, Hierro A
Cell (2016) [PMID: 27889239  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: GOL    SO4    EDO   
PDBe complex ID: PDB-CPX-129992 (Preferred)   search this ID
PDBe-KB: O60493    P49281    O75436    Q96QK1   
X-ray diffraction
3.2Å resolution
Released: 7 Dec 2016
Model geometry
Fit model/data
5f0l
5f0l
5f0l
Structure of retromer VPS26-VPS35 subunits bound to SNX3 and DMT1 (SeMet labeled)
Lucas M, Gershlick D, Vidaurrazaga A, Rojas AL, Bonifacino JS, Hierro A
Cell (2016) [PMID: 27889239  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: GOL    SO4    EDO   
Modified residues: MSE    MSE   
PDBe complex ID: PDB-CPX-129992 (Preferred)   search this ID
PDBe-KB: O60493    P49281    O75436    Q96QK1   
X-ray diffraction
3.1Å resolution
Released: 7 Dec 2016
Model geometry
Fit model/data
5f0m
5f0m
5f0m
Structure of retromer VPS26-VPS35 subunits bound to SNX3 and DMT1(L557M) (SeMet labeled)
Lucas M, Gershlick D, Vidaurrazaga A, Rojas AL, Bonifacino JS, Hierro A
Cell (2016) [PMID: 27889239  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: GOL    ZN    SO4    ZN    EDO   
Modified residues: MSE    MSE   
PDBe complex ID: PDB-CPX-129992 (Preferred)   search this ID
PDBe-KB: O60493    P49281    O75436    Q96QK1   
X-ray diffraction
2.78Å resolution
Released: 7 Dec 2016
Model geometry
Fit model/data
5f0p
5f0p
5f0p
VPS26 dimer region of metazoan membrane-assembled retromer:SNX3 complex modelled with human proteins
Leneva N, Kovtun O, Morado DR, Briggs JAG, Owen DJ
Sci Adv (2021) [PMID: 33762348  ]
Assembly composition: protein/protein complex
Bound ligands: PIB    PIB   
PDBe complex ID: PDB-CPX-129994 (Preferred)   search this ID
PDBe-KB: O60493    P49281    O75436    Q96QK1   
Electron Microscopy
9.5Å resolution
Released: 3 Mar 2021
Model geometry
Fit model/data
Data not analysed
7blo
7blo
7blo
Solution structure of the full length sorting nexin 3
Lenoir MML, Rajesh SSR, Gruenberg JJG, Overduin MMO, Kaur JJK
Nat Commun (2018) [PMID: 29520003  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Assembly name: Sorting nexin-3 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-129991 (Preferred)   search this ID
PDBe-KB: O60493   
Solution NMR
Released: 4 May 2016
Model geometry
Fit model/data
Data not analysed
2mxc
2mxc
2mxc
Crystal structure of the PX domain of human sorting nexin 3
Canning P, Kiyani W, Froese DS, Krojer T, Strain-Damerell C, von Delft F, Arrowsmith CH, Edwards AM, Bountra C, Yue WW
To be published
Source organism: Homo sapiens  
Assembly composition: protein only structure
Assembly name: Sorting nexin-3 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-129991 (Preferred)   search this ID
PDBe-KB: O60493   
X-ray diffraction
2.6Å resolution
Released: 20 Mar 2013
Model geometry
Fit model/data
2yps
2yps
2yps
Entries 1 to 7 of 7
Entries 1 to 7 of 7