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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 (161) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,503 11,894 19
Proteins 1,290 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 0.0000001758 Least Informative Direct
Biological Process (BP) biological regulation 0.00779 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.03127 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.00000001504 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.0004815 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0005439 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.00008884 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.0000004028 Moderately Informative Direct
Biological Process (BP) cellular localization 0.01001 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.0229 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.3552 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1712 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.578 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.9473 Moderately Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.00006459 Informative Direct
Biological Process (BP) cytoskeleton organization 0.000000000001573 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.0002438 Informative Direct
Biological Process (BP) actin filament-based process 0.00000001267 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.000000003093 Informative Direct
Biological Process (BP) locomotion 0.000141 Informative Direct
Biological Process (BP) regulation of locomotion 0.00005892 Informative Direct
Biological Process (BP) cell development 0.000002038 Informative Direct
Biological Process (BP) supramolecular fiber organization 0.0000000453 Informative Direct
Biological Process (BP) central nervous system development 0.0302 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.03436 Informative Inherited
Biological Process (BP) organelle assembly 0.002607 Informative Inherited
Biological Process (BP) single organism reproductive process 0.129 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.1148 Informative Inherited
Biological Process (BP) generation of neurons 0.001472 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.001416 Informative Inherited
Biological Process (BP) post-embryonic development 0.1772 Informative Inherited
Biological Process (BP) tissue development 0.6435 Informative Inherited
Biological Process (BP) embryo development 0.06787 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.1928 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.03362 Informative Inherited
Biological Process (BP) phagocytosis 0.00001325 Highly Informative Direct
Biological Process (BP) female gamete generation 0.0002061 Highly Informative Direct
Biological Process (BP) cellular component assembly involved in morphogenesis 0.0000000001727 Highly Informative Direct
Biological Process (BP) biological adhesion 0 Highly Informative Direct
Biological Process (BP) actomyosin structure organization 0.0002676 Highly Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.000004416 Highly Informative Direct
Biological Process (BP) maintenance of location 0.0000000000000528 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.000002126 Highly Informative Direct
Biological Process (BP) muscle structure development 0.00003591 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0.00000162 Highly Informative Direct
Biological Process (BP) brain development 0.01085 Highly Informative Inherited
Biological Process (BP) neuron development 0.4941 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.1514 Highly Informative Inherited
Biological Process (BP) germ cell development 0.1141 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 0.004899 Highly Informative Inherited
Biological Process (BP) appendage development 0.007641 Highly Informative Inherited
Biological Process (BP) post-embryonic animal morphogenesis 0.03938 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.03676 Highly Informative Inherited
Biological Process (BP) tube morphogenesis 0.07316 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.1145 Highly Informative Inherited
Molecular Function (MF) binding 0.0007846 Least Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.0000000005241 Informative Direct
Molecular Function (MF) receptor binding 0.01428 Informative Inherited
Molecular Function (MF) cell adhesion molecule binding 8.425e-16 Highly Informative Direct
Cellular Component (CC) membrane 0.00000000000002072 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0000001499 Least Informative Direct
Cellular Component (CC) macromolecular complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01334 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.0000000008243 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0.00063 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.003687 Moderately Informative Inherited
Cellular Component (CC) actin cytoskeleton 0 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.00002084 Informative Direct
Cellular Component (CC) synapse 0.000006957 Informative Direct
Cellular Component (CC) plasma membrane protein complex 0.000004951 Informative Direct
Cellular Component (CC) supramolecular polymer 0 Informative Direct
Cellular Component (CC) cytoplasmic region 0 Informative Direct
Cellular Component (CC) neuron projection 0.8173 Informative Inherited
Cellular Component (CC) cortical actin cytoskeleton 0 Highly Informative Direct
Cellular Component (CC) sarcolemma 0.00005109 Highly Informative Direct
Cellular Component (CC) contractile fiber part 0 Highly Informative Direct
Cellular Component (CC) myofibril 1 Highly Informative Inherited
Cellular Component (CC) cell-cell junction 0.08281 Highly Informative Inherited
Cellular Component (CC) cell-substrate adherens junction 1 Highly Informative Inherited

Document: GO 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 phenotype0.08471Least InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.02111Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.0638Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.3056Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.6512Moderately 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 processDifferentiation0.0000000008671Moderately InformativeDirect
Biological processCell adhesion0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane0.000000000001354Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCell projection0.0000000000001153Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000000001746Moderately 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) · 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]