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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 (513) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 3,226 7,920 16
Proteins 3,222 7,894 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 0.4375 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.001844 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular localization 0.00000004469 Moderately Informative Direct
Biological Process (BP) single organism signaling 0.1027 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.7305 Moderately Informative Inherited
Biological Process (BP) system development 0.8785 Moderately Informative Inherited
Biological Process (BP) immune system process 0.007783 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.01904 Moderately Informative Inherited
Biological Process (BP) cell communication 0.08493 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.2643 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.2661 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.004426 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.1294 Moderately Informative Inherited
Biological Process (BP) microtubule-based process 0.000001153 Informative Direct
Biological Process (BP) cell-cell signaling 0.0000001615 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0000000000000109 Informative Direct
Biological Process (BP) secretion by cell 0.000000006443 Informative Direct
Biological Process (BP) membrane organization 0.000000005614 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.001264 Informative Inherited
Biological Process (BP) organelle localization 0.05788 Informative Inherited
Biological Process (BP) sensory organ development 0.002206 Informative Inherited
Biological Process (BP) interspecies interaction between organisms 0.006245 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.02896 Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0.000000002173 Highly Informative Direct
Biological Process (BP) microtubule-based movement 0.000001139 Highly Informative Direct
Biological Process (BP) viral process 0.00002966 Highly Informative Direct
Biological Process (BP) vesicle organization 0.000000000001381 Highly Informative Direct
Biological Process (BP) signal release 0.00009757 Highly Informative Direct
Biological Process (BP) vesicle localization 0.0002611 Highly Informative Direct
Biological Process (BP) trans-synaptic signaling 0.0000001134 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.01203 Highly Informative Inherited
Molecular Function (MF) binding 0.0002948 Least Informative Direct
Molecular Function (MF) transporter activity 0.000003565 Moderately Informative Direct
Molecular Function (MF) enzyme binding 0.007955 Informative Inherited
Molecular Function (MF) protein transporter activity 0 Highly Informative Direct
Molecular Function (MF) kinase binding 0.04105 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.000000000007666 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00000001733 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.6954 Least Informative Inherited
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 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.04621 Moderately Informative Inherited
Cellular Component (CC) Golgi apparatus 0 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) synapse 0.0000314 Informative Direct
Cellular Component (CC) membrane region 0.0000000001279 Informative Direct
Cellular Component (CC) plasma membrane protein complex 0.000007767 Informative Direct
Cellular Component (CC) vacuolar part 0.007062 Informative Inherited
Cellular Component (CC) lytic vacuole 0.05617 Informative Inherited
Cellular Component (CC) lysosomal membrane 0.0000001175 Highly Informative Direct
Cellular Component (CC) Golgi-associated vesicle 0 Highly Informative Direct
Cellular Component (CC) synaptic vesicle 0.00000296 Highly Informative Direct
Cellular Component (CC) coated vesicle 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0.00000006823 Highly Informative Direct
Cellular Component (CC) endocytic vesicle 0.005541 Highly Informative Inherited
Cellular Component (CC) Golgi subcompartment 0.01213 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)growth/size/body region phenotype0.1304Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.1329Least InformativeInherited
Mammalian Phenotype (MP)abnormal body composition0.6495Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0.936Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal glucose homeostasis0.1802InformativeInherited
Mammalian Phenotype (MP)decreased total tissue mass0.2213InformativeInherited
Mammalian Phenotype (MP)decreased body size0.36InformativeInherited
Mammalian Phenotype (MP)decreased birth weight0.0001131Highly InformativeDirect
Mammalian Phenotype (MP)hypoglycemia0.0001409Highly InformativeDirect
Mammalian Phenotype (MP)postnatal growth retardation0.05765Highly 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 variant0.002431Least 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 variant0.0006349Moderately InformativeDirect
Worm Phenotype (WP)accumulated germline cell corpses0.000001681InformativeDirect

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 componentEndosome0.0000000008206Moderately InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
DomainRepeat0.00000000000001454Least InformativeDirect
Molecular functionLipid-binding0.000000003134Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.000002152Least 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 ]