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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 (498) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,693 1,856 7
Proteins 1,692 1,856 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) cellular component organization or biogenesis 0.03773 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.09213 Least Informative Inherited
Biological Process (BP) immune system process 0.000132 Moderately Informative Direct
Biological Process (BP) system development 0.885 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.00176 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.2755 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.7128 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.1148 Moderately Informative Inherited
Biological Process (BP) cell communication 0.06455 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.218 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.3075 Moderately Informative Inherited
Biological Process (BP) microtubule-based process 0.0001732 Informative Direct
Biological Process (BP) cell-cell signaling 0.00001292 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0000000003394 Informative Direct
Biological Process (BP) secretion by cell 0.00003846 Informative Direct
Biological Process (BP) membrane organization 0.0002971 Informative Direct
Biological Process (BP) organelle localization 0.04308 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.01549 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.05466 Informative Inherited
Biological Process (BP) microtubule-based movement 0.0000009405 Highly Informative Direct
Biological Process (BP) vesicle localization 0.03059 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.004429 Highly Informative Inherited
Molecular Function (MF) binding 0.0134 Least Informative Inherited
Molecular Function (MF) transporter activity 0.001352 Moderately Informative Inherited
Molecular Function (MF) enzyme binding 0.01583 Informative Inherited
Molecular Function (MF) protein transporter activity 0.000000001954 Highly Informative Direct
Molecular Function (MF) kinase binding 0.0000006242 Highly Informative Direct
Cellular Component (CC) membrane 0.000000000000503 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.00000003116 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000009356 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.001047 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) plasma membrane 0.000005474 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) membrane protein complex 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.00000000003591 Moderately Informative Direct
Cellular Component (CC) Golgi apparatus 0.00000000323 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) membrane region 0.0000000000004916 Informative Direct
Cellular Component (CC) plasma membrane protein complex 0.00000009872 Informative Direct
Cellular Component (CC) Golgi-associated vesicle 0.000004886 Highly Informative Direct
Cellular Component (CC) coated vesicle 0.000000000000003141 Highly Informative Direct
Cellular Component (CC) endocytic vesicle 0.00001639 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)hematopoietic system phenotype0Least InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)apoptosis variant0Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0Moderately InformativeDirect
Worm Phenotype (WP)movement variant0Moderately InformativeDirect
Worm Phenotype (WP)cell component morphology variant0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)lung0InformativeDirect
Xenopus ANatomical entity (XAN)spleen0InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect

Document: AP 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
DomainRepeat6.234e-16Least InformativeDirect
Molecular functionLipid-binding0.00000000008199Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.0002934Least 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]