The Eukaryotic Linear Motif resource for
Functional Sites in Proteins
Functional site class:
Clathrin box
Functional site description:
Clathrin boxes are found on cargo adaptor proteins. They interact with the N-terminal beta-propeller structure of Clathrin heavy chain. Beside the "classical" motif, some variants have been described for various types of adaptor proteins. The same protein can bear several subtypes of Clathrin boxes.
ELMs with same func. site: LIG_Clathr_ClatBox_1  LIG_Clathr_ClatBox_2 
ELM Description:
This variant clathrin box motif (also called the W box) is found in tandem arrangement with a "classical" clathrin box, (LIG_Clathr_ClatBox_1) in a subgroup of cargo adaptor proteins enriched in nerve terminals: the amphiphysins. It is also found in sorting nexin-9. Both motifs bind the beta propeller structure of Clathrin heavy chain with a similar affinity (Ramjaun,1998, Slepnev,2000) but at distinct sites and while the classical clathrin box assumes an extended conformation, the W box is compact and helical (Miele,2004). A synergistic effect of appropriately spaced type 1 and 2 clathrin boxes on clathrin assembly and recruitment has been shown in vitro (Drake,2001). Amphiphysin 1 is the dominant autoantigen of paraneoplastic stiff-man syndrome.
Pattern: .[NP]W[DES].W
Pattern Probability: 0.0000015
Present in taxons: Eukaryota Gallus gallus Homo sapiens Mus musculus Rattus norvegicus
Interaction Domain:
Clathrin_propel (PF01394) Clathrin propeller repeat (Stochiometry: 1 : 1)
PDB Structure: 1UTC
o See 2 Instances for LIG_Clathr_ClatBox_2
o Abstract
Clathrin is the main component of the coat that decorates the cytosolic face of carrier vesicles mediating protein and lipid transport in the endocytic and late secretory pathways. In vivo the multimerisation of the clathrin heterohexamer (known as triskelion) and the clathrin-mediated vesicular trafficking are regulated through a complex network of interactions involving clathrin and a number of accessory proteins.
Clathrin boxes are 5-residue-motifs found on cargo adaptor proteins, mostly near their C-terminus or central region. They are found in a large variety of accessory proteins involved in endocytosis and vesicular trafficking (specific adaptors like beta-arrestin and more general adaptor proteins like AP complexes). Unfolded flexible regions or hinges can display multiple copies of the motif, sometime belonging to different subtypes. This organisation is believed to ensure a complex, ajustable network of "weak" cooperative interactions, with the affinity between members defined by the number of motifs they possess. Extended peptides could also promote clathrin assembly by bridging the heavy chains of clathrin molecules engaged in an assembled coat. Clathin box motifs interact with the N-terminus of Clathrin heavy chain, with the so called beta-propeller structure.
o 4 selected references:

o 6 GO-Terms:

o 2 Instances for LIG_Clathr_ClatBox_2
(click table headers for sorting; Notes column: =Number of Switches, =Number of Interactions)
Acc., Gene-, NameStartEndSubsequenceLogic#Ev.OrganismNotes
O00499 BIN1
415 420 PTPSGQSIPWDLWEPTESPA TP 3 Homo sapiens (Human)
P49418 AMPH
380 385 HSPMSQTLPWDLWTTSTDLV TP 8 Homo sapiens (Human)
Please cite: ELM 2016-data update and new functionality of the eukaryotic linear motif resource. (PMID:26615199)

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