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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 (156) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,394 4,547 19
Proteins 1,260 1,371 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 0.0000001033 Least Informative Direct
Biological Process (BP) biological regulation 0.02149 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.04582 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.0000001361 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.000003002 Moderately Informative Direct
Biological Process (BP) cellular localization 0.00001576 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.00003256 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.00006252 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0004633 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.0005083 Moderately Informative Direct
Biological Process (BP) organelle organization 0.2599 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.6054 Moderately Informative Inherited
Biological Process (BP) reproduction 0.07934 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.8763 Moderately Informative Inherited
Biological Process (BP) cell adhesion 0 Informative Direct
Biological Process (BP) cytoskeleton organization 0.00000000000179 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.000000001798 Informative Direct
Biological Process (BP) cell development 0.00000004144 Informative Direct
Biological Process (BP) actin filament-based process 0.00000008165 Informative Direct
Biological Process (BP) regulation of locomotion 0.00003121 Informative Direct
Biological Process (BP) locomotion 0.00009099 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.0001093 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.0004449 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.0004784 Informative Direct
Biological Process (BP) organelle assembly 0.0008744 Informative Direct
Biological Process (BP) central nervous system development 0.009316 Informative Inherited
Biological Process (BP) generation of neurons 0.001105 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.04749 Informative Inherited
Biological Process (BP) single organism reproductive process 0.02788 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.03351 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.05338 Informative Inherited
Biological Process (BP) epithelium development 0.01862 Informative Inherited
Biological Process (BP) post-embryonic development 0.103 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.02775 Informative Inherited
Biological Process (BP) embryo development 0.1699 Informative Inherited
Biological Process (BP) maintenance of location in cell 0 Highly Informative Direct
Biological Process (BP) cellular component assembly involved in morphogenesis 0.00000000006696 Highly Informative Direct
Biological Process (BP) cell projection organization 0.000002295 Highly Informative Direct
Biological Process (BP) muscle structure development 0.00001073 Highly Informative Direct
Biological Process (BP) cell junction assembly 0.0001069 Highly Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.0001176 Highly Informative Direct
Biological Process (BP) female gamete generation 0.0001268 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.0001807 Highly Informative Direct
Biological Process (BP) actomyosin structure organization 0.0002163 Highly Informative Direct
Biological Process (BP) instar larval or pupal morphogenesis 0.0002999 Highly Informative Direct
Biological Process (BP) tube morphogenesis 0.06598 Highly Informative Inherited
Biological Process (BP) brain development 0.006169 Highly Informative Inherited
Biological Process (BP) neuron development 0.4798 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.2673 Highly Informative Inherited
Biological Process (BP) appendage development 0.008326 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 0.01109 Highly Informative Inherited
Biological Process (BP) metamorphosis 0.001534 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.2592 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.08593 Highly Informative Inherited
Biological Process (BP) germ cell development 0.1323 Highly Informative Inherited
Biological Process (BP) cell migration 0.4312 Highly Informative Inherited
Biological Process (BP) endocytosis 0.04456 Highly Informative Inherited
Molecular Function (MF) binding 0.0002646 Least Informative Direct
Molecular Function (MF) protein binding 0.000000027 Moderately Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.000001663 Informative Direct
Molecular Function (MF) receptor binding 0.03976 Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) membrane 0.000000000000004561 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000006417 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.006803 Least Informative Inherited
Cellular Component (CC) protein complex 0.5032 Least Informative Inherited
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.000000002092 Moderately Informative Direct
Cellular Component (CC) cell projection 0.0006018 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.2715 Moderately Informative Inherited
Cellular Component (CC) cytoplasmic region 0 Informative Direct
Cellular Component (CC) actin cytoskeleton 0 Informative Direct
Cellular Component (CC) cell junction 0 Informative Direct
Cellular Component (CC) synapse 0.000006379 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.00001478 Informative Direct
Cellular Component (CC) neuron projection 0.5657 Informative Inherited
Cellular Component (CC) plasma membrane protein complex 0.0329 Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0 Highly Informative Direct
Cellular Component (CC) contractile fiber part 0 Highly Informative Direct
Cellular Component (CC) anchoring junction 0 Highly Informative Direct
Cellular Component (CC) myofibril 1 Highly Informative Inherited
Cellular Component (CC) cell-substrate junction 0.2186 Highly Informative Inherited
Cellular Component (CC) cell-cell junction 0.2706 Highly Informative Inherited

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Autosomal dominant inheritance0Least InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.07728Least InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.02081Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.05643Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.3054Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.6493Moderately InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)integumentary system0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)acellular anatomical structure0Moderately InformativeDirect
Fly Anatomy (FA)prepupa0InformativeDirect

Document: FA 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)cell0Least 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)multi-tissue structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)egg0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0.0000000007403Moderately InformativeDirect
Biological processCell adhesion0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane0.000000000001336Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCell projection0.00000000000006304Moderately InformativeDirect
Molecular functionActin-binding0InformativeDirect
Post-translational modificationDevelopmental protein0.000000001635Moderately InformativeDirect
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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · 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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]