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Subdomain of clathrin and coatomer appendage domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Subdomain of clathrin and coatomer appendage domain [ 55710]
Superfamily:   Subdomain of clathrin and coatomer appendage domain [ 55711] (2)
Families:   Clathrin adaptor appendage, alpha and beta chain-specific domain [ 55712] (2)
  Coatomer appendage domain [ 103159]


Superfamily statistics
Genomes (499) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 1,696 4,210 7
Proteins 1,695 4,199 7


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism cellular process 0.3292 Least Informative Inherited
Biological Process (BP) immune system process 0.0006421 Moderately Informative Direct
Biological Process (BP) nitrogen compound transport 0.23 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.6584 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.1016 Moderately Informative Inherited
Biological Process (BP) protein transport 0.0000000003275 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0000000003938 Informative Direct
Biological Process (BP) microtubule-based process 0.0001704 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.02855 Informative Inherited
Biological Process (BP) microtubule-based movement 0.0000009636 Highly Informative Direct
Molecular Function (MF) binding 0.007248 Least Informative Inherited
Molecular Function (MF) transporter activity 0.00124 Moderately Informative Inherited
Molecular Function (MF) enzyme binding 0.0165 Informative Inherited
Molecular Function (MF) protein transporter activity 0.000000001614 Highly Informative Direct
Molecular Function (MF) kinase binding 0.000000527 Highly Informative Direct
Cellular Component (CC) membrane 0.0000000000003593 Least Informative Direct
Cellular Component (CC) protein complex 0.0000000000007335 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000005925 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0009996 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) endomembrane system 0 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0 Moderately Informative Direct
Cellular Component (CC) bounding membrane of organelle 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.00000000002498 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.000005692 Moderately Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) membrane region 0.0000000000003779 Informative Direct
Cellular Component (CC) Golgi apparatus 0.000000003984 Informative Direct
Cellular Component (CC) plasma membrane protein complex 0.00000009915 Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0 Highly Informative Direct
Cellular Component (CC) membrane coat 0 Highly Informative Direct
Cellular Component (CC) coated vesicle 0.000000000000003036 Highly Informative Direct
Cellular Component (CC) endocytic vesicle 0.00001247 Highly Informative Direct
Cellular Component (CC) Golgi-associated vesicle 0.0007745 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processER-Golgi transport0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
DomainRepeat6.225e-16Least InformativeDirect
Molecular functionLipid-binding0.00000000008292Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.0002772Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009028 SSF55711 Protein matches
Abstract

The alpha and beta2 adaptor subunits can each be divided into a trunk domain and the appendage domain (or ear domain), separated by a linker region. Clathrin polymerisation is promoted by its binding to the beta2 appendage and hinge domains. The alpha appendage domain interacts with a number of accessory proteins, including eps15, epsin, amphiphysin, AP180, auxilin, numb, and Dab2, thereby regulating the translocation of these proteins to the bud site.

This entry represents a subdomain of the appendage (ear) domain of alpha- and beta-adaptin from AP clathrin adaptor complexes, and the appendage domain of the gamma subunit of coatomer complexes. These domains have a three-layer arrangement, alpha-beta-alpha, with a bifurcated antiparallel beta-sheet [PubMed10430869, PubMed10944104, [PubMed14690497]. Although the appendage domains from AP adaptins and coatomers share a similar fold, there is little sequence identity between them. However, they also share similar motif-based cargo recognition and accessory factor recruitment mechanisms.

More information about these proteins can be found at Protein of the Month: Clathrin.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Subdomain of clathrin and coatomer appendage domain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the Subdomain of clathrin and coatomer appendage domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]