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Clathrin adaptor appendage domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Immunoglobulin-like beta-sandwich [ 48725] (28)
Superfamily:   Clathrin adaptor appendage domain [ 49348] (3)
Families:   Alpha-adaptin ear subdomain-like [ 49349] (2)
  gamma-adaptin C-terminal appendage domain-like [ 74857] (3)
  Coatomer appendage domain [ 101536]


Superfamily statistics
Genomes (508) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,195 3,589 16
Proteins 3,191 3,582 16


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 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.05808 Least Informative Inherited
Biological Process (BP) biological regulation 0.9279 Least Informative Inherited
Biological Process (BP) cellular localization 0.000005682 Moderately Informative Direct
Biological Process (BP) cell communication 0.06053 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.1277 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.07363 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.8007 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.02851 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.4597 Moderately Informative Inherited
Biological Process (BP) signaling 0.06614 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.04048 Moderately Informative Inherited
Biological Process (BP) immune system process 0.1674 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.1126 Moderately Informative Inherited
Biological Process (BP) microtubule-based process 0.0000008167 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0000000000119 Informative Direct
Biological Process (BP) secretion 0.0005239 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.005088 Informative Inherited
Biological Process (BP) regulation of defense response 0.002618 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.003976 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.01658 Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0.000000001219 Highly Informative Direct
Biological Process (BP) antigen processing and presentation of exogenous peptide antigen 0.0000002105 Highly Informative Direct
Biological Process (BP) microtubule-based movement 0.0000008575 Highly Informative Direct
Biological Process (BP) vesicle organization 0.0000000003456 Highly Informative Direct
Biological Process (BP) signal release 0.0002135 Highly Informative Direct
Biological Process (BP) vesicle localization 0.0004477 Highly Informative Direct
Biological Process (BP) establishment of organelle localization 0.0001029 Highly Informative Direct
Biological Process (BP) synaptic signaling 0.02649 Highly Informative Inherited
Biological Process (BP) endocytosis 1 Highly Informative Inherited
Molecular Function (MF) binding 0.00006066 Least Informative Direct
Molecular Function (MF) transporter activity 0.00000283 Moderately Informative Direct
Molecular Function (MF) protein binding 0.000000006003 Moderately Informative Direct
Molecular Function (MF) enzyme binding 0.01844 Informative Inherited
Molecular Function (MF) protein transporter activity 0 Highly Informative Direct
Molecular Function (MF) kinase binding 0.0189 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) protein complex 0.00000006849 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000000001789 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000000009417 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.2473 Least Informative Inherited
Cellular Component (CC) organelle membrane 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.07144 Moderately Informative Inherited
Cellular Component (CC) vacuole 0.01291 Moderately Informative Inherited
Cellular Component (CC) Golgi apparatus 0 Informative Direct
Cellular Component (CC) transport vesicle 0.00000000247 Informative Direct
Cellular Component (CC) organelle subcompartment 0 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) synapse 0.0000157 Informative Direct
Cellular Component (CC) membrane region 0.000000006806 Informative Direct
Cellular Component (CC) plasma membrane protein complex 0.0000009921 Informative Direct
Cellular Component (CC) vacuolar part 0.002753 Informative Inherited
Cellular Component (CC) secretory vesicle 0.6495 Informative Inherited
Cellular Component (CC) lytic vacuole 0.04805 Informative Inherited
Cellular Component (CC) Golgi-associated vesicle 0 Highly Informative Direct
Cellular Component (CC) synaptic vesicle 0.00000009351 Highly Informative Direct
Cellular Component (CC) vesicle membrane 0 Highly Informative Direct
Cellular Component (CC) coated vesicle 0 Highly Informative Direct
Cellular Component (CC) lytic vacuole membrane 0.0000001888 Highly Informative Direct
Cellular Component (CC) endocytic vesicle 0.02792 Highly Informative Inherited

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.1176Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.1313Least InformativeInherited
Mammalian Phenotype (MP)abnormal body size0.4442Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal glucose homeostasis0.1541InformativeInherited
Mammalian Phenotype (MP)decreased total tissue mass0.2275InformativeInherited
Mammalian Phenotype (MP)decreased body size0.3654InformativeInherited
Mammalian Phenotype (MP)decreased birth weight0.0001203Highly InformativeDirect
Mammalian Phenotype (MP)hypoglycemia0.00015Highly InformativeDirect
Mammalian Phenotype (MP)postnatal growth retardation0.05956Highly InformativeInherited

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 physiology variant0Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00198Least InformativeInherited
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 variant0.0004564Moderately InformativeDirect
Worm Phenotype (WP)accumulated germline cell corpses0.000001709InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)anatomical group0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
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)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0Moderately InformativeDirect

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 componentEndosome0.0000000006769Moderately InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
DomainRepeat0.00000000000001331Least InformativeDirect
Molecular functionLipid-binding0.000000002804Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.000002066Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR013041 SSF49348 Protein matches
Abstract

This entry represents a beta-sandwich structural motif found in the appendage (ear) domain of alpha-, beta- and gamma-adaptin from AP clathrin adaptor complexes, the GAE (gamma-adaptin ear) domain of GGA adaptor proteins, and the appendage domain of the gamma subunit of coatomer complexes. These domains have an immunoglobulin-like beta-sandwich fold containing 7 or 8 strands in 2 beta-sheets in a Greek key topology [PubMed12042876, PubMed12808037, PubMed14527408]. Although the appendage domains from AP / GGA 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) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · 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 8 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 Clathrin adaptor 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 8 hidden Markov models representing the Clathrin adaptor 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) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]