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Cadherin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Immunoglobulin-like beta-sandwich [ 48725] (28)
Superfamily:   Cadherin-like [ 49313] (2)
Families:   Cadherin [ 49314] (3)
  Dystroglycan, N-terminal domain [ 110062]


Superfamily statistics
Genomes (864) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 73,329 232,798 29
Proteins 11,150 44,369 14


Functional annotation
General category Processes_EC
Detailed category Cell adhesion

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)skin disease0.896Moderately InformativeInherited
Disease Ontology (DO)bullous skin disease0.004985InformativeInherited
Disease Ontology (DO)pemphigus0.00003994Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.5196Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal cardiovascular system physiology0.3437Moderately InformativeInherited
Phenotypic Abnormality (PA)Arrhythmia0.08906InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.1899Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.74Least InformativeInherited
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.1067Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.1316Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.1381Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.2305Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.8298Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001841InformativeInherited
Mammalian Phenotype (MP)abnormal epidermal layer morphology0.06336InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.4552InformativeInherited
Mammalian Phenotype (MP)abnormal epidermis stratum spinosum morphology0.00005552Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear hair cell stereociliary bundle morphology0.00007275Highly InformativeDirect
Mammalian Phenotype (MP)impaired branching involved in ureteric bud morphogenesis0.0001713Highly InformativeDirect
Mammalian Phenotype (MP)abnormal kidney development0.0003183Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.0007293Highly InformativeDirect
Mammalian Phenotype (MP)abnormal primary cilium morphology0.003556Highly InformativeInherited
Mammalian Phenotype (MP)stereotypic behavior0.07593Highly InformativeInherited
Mammalian Phenotype (MP)abnormal head movements0.2817Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect
Worm Phenotype (WP)cell development variant0.01254Least InformativeInherited
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect
Worm Phenotype (WP)reproductive system development variant0.04261Moderately InformativeInherited
Worm Phenotype (WP)anchor cell invasion variant0.0000415InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.0007125InformativeDirect
Worm Phenotype (WP)cell polarity variant0.000002615Highly InformativeDirect
Worm Phenotype (WP)axon guidance variant0.0001537Highly InformativeDirect
Worm Phenotype (WP)neurite development variant0.04401Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)cell polarity defective0.000000009099InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)somatic cell0.2306Least InformativeInherited
Fly Anatomy (FA)nervous system0.3331Least InformativeInherited
Fly Anatomy (FA)adult0.3572Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.5288Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)adult nervous system0.04359Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.1081Moderately InformativeInherited
Fly Anatomy (FA)sensory system0.1368Moderately InformativeInherited
Fly Anatomy (FA)head0.1545Moderately InformativeInherited
Fly Anatomy (FA)neuron0.3272Moderately InformativeInherited
Fly Anatomy (FA)eye photoreceptor cell0.09812InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.3667Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.6253Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.6711Least InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.008074Moderately InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.3317Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.02141InformativeInherited
Zebrafish Anatomy (ZA)cranial nerve II0.00001303Highly InformativeDirect
Zebrafish Anatomy (ZA)optic tectum0.00007956Highly InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)anatomical system1Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.0001394Moderately InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase0Highly InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR015919 SSF49313 Protein matches
Abstract

This entry represents domains with an immunoglobulin-like beta-sandwich fold, consisting of 7 strands in two sheets with a Greek key topology. Such domains are found in cadherin, as well as at the N-terminal of dystroglycan. Dystroglycan is a cell surface receptor consisting of two subunits: alpha-dystroglycan, extracellular and highly glycosylated, and beta-dystroglycan, spanning the cell membrane. It is a pivotal member of the dystrophin-glycoprotein complex and is involved in a wide variety of important cellular processes such as the stabilisation of the muscle fiber sarcolemma or the clustering of acetylcholine receptors [PubMed11909544, PubMed15326183, PubMed16410545].

Cadherins are a family of adhesion molecules that mediate Ca2+-dependent cell-cell adhesion in all solid tissues of the organism which modulate a wide variety of processes including cell polarisation and migration [PubMed2197976,PubMed14570569]. Cadherin-mediated cell-cell junctions are formed as a result of interaction between extracellular domains of identical cadherins, which are located on the membranes of the neighbouring cells. The stability of these adhesive junctions is ensured by binding of the intracellular cadherin domain with the actin cytoskeleton. There are a number of different isoforms distributed in a tissue-specific manner in a wide variety of organisms. Cells containing different cadherins tend to segregate in vitro, while those that contain the same cadherins tend to preferentially aggregate together. This observation is linked to the finding that cadherin expression causes morphological changes involving the positional segregation of cells into layers, suggesting they may play an important role in the sorting of different cell types during morphogenesis, histogenesis and regeneration. They may also be involved in the regulation of tight and gap junctions, and in the control of intercellular spacing. Cadherins are evolutionary related to the desmogleins which are component of intercellular desmosome junctions involved in the interaction of plaque proteins.

Structurally, cadherins comprise a number of domains: classically, these include a signal sequence; a propeptide of around 130 residues; a single transmembrane domain and five tandemly repeated extracellular cadherin domains, 4 of which are cadherin repeats, and the fifth contains 4 conserved cysteines and a N-terminal cytoplasmic domain [PubMed11736639]. However, proteins are designated as members of the broadly defined cadherin family if they have one or more cadherin repeats. A cadherin repeat is an independently folding sequence of approximately 110 amino acids that contains motifs with the conserved sequences DRE, DXNDNAPXF, and DXD. Crystal structures have revealed that multiple cadherin domains form Ca2+-dependent rod-like structures with a conserved Ca2+-binding pocket at the domain-domain interface. Cadherins depend on calcium for their function: calcium ions bind to specific residues in each cadherin repeat to ensure its proper folding, to confer rigidity upon the extracellular domain and is essential for cadherin adhesive function and for protection against protease digestion.


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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) ]

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 33 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 Cadherin-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 33 hidden Markov models representing the Cadherin-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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · Internal database links ]