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alpha-catenin/vinculin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Four-helical up-and-down bundle [ 47161] (28)
Superfamily:   alpha-catenin/vinculin-like [ 47220] (2)
Families:   alpha-catenin/vinculin [ 47221] (2)
  VBS domain [ 140408]


Superfamily statistics
Genomes (163) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,627 11,894 19
Proteins 1,326 3,476 11


Functional annotation
General category Processes_EC
Detailed category Cell adhesion

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 0.0000004451 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0002186 Least Informative Direct
Biological Process (BP) biological regulation 0.09138 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.07186 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.000000001317 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.0000002143 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.000003057 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.00002004 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0008671 Moderately Informative Direct
Biological Process (BP) ion transport 0.2578 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.01726 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.08115 Moderately Informative Inherited
Biological Process (BP) animal organ development 0.1102 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.3805 Moderately Informative Inherited
Biological Process (BP) tissue development 0.6199 Moderately Informative Inherited
Biological Process (BP) reproduction 0.2276 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.668 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) supramolecular fiber organization 0.00000000002812 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0000000003605 Informative Direct
Biological Process (BP) cell development 0.000000634 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.00004192 Informative Direct
Biological Process (BP) organelle assembly 0.00007638 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.0001693 Informative Direct
Biological Process (BP) regulation of locomotion 0.0001773 Informative Direct
Biological Process (BP) epithelium development 0.0004209 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.000625 Informative Direct
Biological Process (BP) transmembrane transport 0.01675 Informative Inherited
Biological Process (BP) circulatory system development 0.0276 Informative Inherited
Biological Process (BP) system process 0.1184 Informative Inherited
Biological Process (BP) central nervous system development 0.1408 Informative Inherited
Biological Process (BP) generation of neurons 0.004275 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2465 Informative Inherited
Biological Process (BP) actin cytoskeleton organization 0.001262 Informative Inherited
Biological Process (BP) single organism reproductive process 0.138 Informative Inherited
Biological Process (BP) post-embryonic development 0.1919 Informative Inherited
Biological Process (BP) embryo development 0.03614 Informative Inherited
Biological Process (BP) localization of cell 0.001016 Informative Inherited
Biological Process (BP) locomotion 0.001484 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.1685 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.09367 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.06078 Informative Inherited
Biological Process (BP) biological adhesion 0 Highly Informative Direct
Biological Process (BP) striated muscle cell development 0.00000000000001079 Highly Informative Direct
Biological Process (BP) cellular component assembly involved in morphogenesis 0.00000000000001763 Highly Informative Direct
Biological Process (BP) maintenance of location 0.00000000000008895 Highly Informative Direct
Biological Process (BP) heart contraction 0.0000007697 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.00000101 Highly Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.000002647 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0.000006331 Highly Informative Direct
Biological Process (BP) actomyosin structure organization 0.00001295 Highly Informative Direct
Biological Process (BP) phagocytosis 0.00005662 Highly Informative Direct
Biological Process (BP) female gamete generation 0.0007985 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0.005452 Highly Informative Inherited
Biological Process (BP) heart development 0.002071 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.415 Highly Informative Inherited
Biological Process (BP) germ cell development 0.2458 Highly Informative Inherited
Biological Process (BP) neuron development 0.7219 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.06803 Highly Informative Inherited
Biological Process (BP) post-embryonic animal morphogenesis 0.1015 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.008954 Highly Informative Inherited
Biological Process (BP) tube morphogenesis 0.1773 Highly Informative Inherited
Biological Process (BP) appendage development 0.02249 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 0.01998 Highly Informative Inherited
Molecular Function (MF) binding 0.03676 Least Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.0000000001112 Informative Direct
Molecular Function (MF) receptor binding 0.01747 Informative Inherited
Molecular Function (MF) cell adhesion molecule binding 0 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00000000001871 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00001513 Least Informative Direct
Cellular Component (CC) protein complex 0.669 Least Informative Inherited
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0.003785 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 0.003157 Moderately Informative Inherited
Cellular Component (CC) cytoplasmic region 0 Informative Direct
Cellular Component (CC) actin cytoskeleton 0 Informative Direct
Cellular Component (CC) supramolecular polymer 0 Informative Direct
Cellular Component (CC) plasma membrane protein complex 0.000001879 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.000006704 Informative Direct
Cellular Component (CC) neuron projection 0.9516 Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0 Highly Informative Direct
Cellular Component (CC) cell-cell junction 0.0007523 Highly Informative Direct
Cellular Component (CC) cell-substrate adherens junction 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0.0000000008849Moderately InformativeDirect
Biological processCell adhesion0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane0.000000000001509Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCell projection0.0000000000001263Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000000001742Moderately InformativeDirect
Post-translational modificationActin-binding0InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR006077 SSF47220 Protein matches
Abstract

Vinculin is a eukaryotic protein that seems to be involved in the attachment of the actin-based microfilaments to the plasma membrane. Vinculin is located at the cytoplasmic side of focal contacts or adhesion plaques [PubMed2112986]. In addition to actin, vinculin interacts with other structural proteins such as talin and alpha-actinins.

Vinculin is a large protein of 116 kDa (about a 1000 residues). Structurally the protein consists of an acidic N-terminal domain of about 90 kDa separated from a basic C-terminal domain of about 25 kDa by a proline-rich region of about 50 residues. The central part of the N-terminal domain consists of a variable number (3 in vertebrates, 2 in Caenorhabditis elegans) of repeats of a 110 amino acids domain.

Alpha-catenins are evolutionary related to vinculin [PubMed1924379]. Catenins are proteins that associate with the cytoplasmic domain of a variety of cadherins. The association of catenins to cadherins produces a complex which is linked to the actin filament network, and which seems to be of primary importance for cadherins cell-adhesion properties. Three different types of catenins seem to exist: alpha, beta, and gamma. Alpha-catenins are proteins of about 100 kDa which are evolutionary related to vinculin. In terms of their structure the most significant differences are the absence, in alpha-catenin, of the repeated domain and of the proline-rich segment.


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 12 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 alpha-catenin/vinculin-like 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 12 hidden Markov models representing the alpha-catenin/vinculin-like 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 ]