SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


Notch domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Notch domain [ 90192]
Superfamily:   Notch domain [ 90193]
Families:   Notch domain [ 90194]


Superfamily statistics
Genomes (156) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 1,149 3,287 1
Proteins 520 1,477 1


Functional annotation
General category Regulation
Detailed category Receptor activity

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.057Least InformativeInherited
Disease Ontology (DO)benign neoplasm0.0000553Moderately InformativeDirect
Disease Ontology (DO)hypersensitivity reaction type II disease0.0001874Moderately InformativeDirect
Disease Ontology (DO)hematopoietic system disease0.001685Moderately InformativeInherited
Disease Ontology (DO)hematologic cancer0.02348Moderately InformativeInherited
Disease Ontology (DO)organ system benign neoplasm0.0000007142InformativeDirect
Disease Ontology (DO)hemorrhagic disease0.00001722InformativeDirect
Disease Ontology (DO)urinary system cancer0.00001972InformativeDirect
Disease Ontology (DO)cell type benign neoplasm0.00003214InformativeDirect
Disease Ontology (DO)liver carcinoma0.0003852InformativeDirect
Disease Ontology (DO)lymphoblastic leukemia0.0006374InformativeDirect
Disease Ontology (DO)skin hemangioma0.0000000000003019Highly InformativeDirect
Disease Ontology (DO)hemangioma0.000000003034Highly InformativeDirect
Disease Ontology (DO)primary thrombocytopenia0.00000001432Highly InformativeDirect
Disease Ontology (DO)purpura0.000001923Highly InformativeDirect
Disease Ontology (DO)renal cell carcinoma0.000004292Highly 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 head0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the integument0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the digestive system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormal skull morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Growth abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the respiratory system0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vasculature0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of connective tissue0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal anterior eye segment morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal cardiovascular system physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skin morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal eye physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.2203Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal lung morphology0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the calvaria0InformativeDirect
Phenotypic Abnormality (PA)Localized skin lesion0InformativeDirect
Phenotypic Abnormality (PA)Hernia0InformativeDirect
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.0008702InformativeDirect
Phenotypic Abnormality (PA)Abnormal spleen morphology0.001884InformativeInherited
Phenotypic Abnormality (PA)Visceromegaly0.004583InformativeInherited
Phenotypic Abnormality (PA)Abnormal lip morphology0.0118InformativeInherited
Phenotypic Abnormality (PA)Abnormality of calvarial morphology0Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the abdominal wall0Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal aortic valve physiology0.00002931Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal form of the vertebral bodies0.0003083Highly InformativeDirect
Phenotypic Abnormality (PA)Increased blood pressure0.0008394Highly InformativeDirect
Phenotypic Abnormality (PA)Splenomegaly0.0008601Highly InformativeDirect
Phenotypic Abnormality (PA)Kyphosis0.0008914Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the philtrum0.002416Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0Least InformativeDirect
Mammalian Phenotype (MP)growth/size/body region phenotype0Least InformativeDirect
Mammalian Phenotype (MP)cardiovascular system phenotype0.01426Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.03597Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.03806Least InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal eye morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.0002884Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal blood vessel morphology0.0008754Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal heart morphology0.001551Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.001601Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.003571Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.00451Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.006443Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.006668Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.009132Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.09939Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.1654Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.2257Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.39Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.4423Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.4878Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal smooth muscle morphology0.00002431InformativeDirect
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.0001809InformativeDirect
Mammalian Phenotype (MP)abnormal embryo development0.000408InformativeDirect
Mammalian Phenotype (MP)abnormal angiogenesis0.0004453InformativeDirect
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.0009714InformativeDirect
Mammalian Phenotype (MP)abnormal pancreas morphology0.009195InformativeInherited
Mammalian Phenotype (MP)abnormal fluid regulation0.03939InformativeInherited
Mammalian Phenotype (MP)abnormal spleen morphology0.06588InformativeInherited
Mammalian Phenotype (MP)abnormal epidermal layer morphology0.08298InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.09019InformativeInherited
Mammalian Phenotype (MP)abnormal skin appearance0.2208InformativeInherited
Mammalian Phenotype (MP)abnormal pancreatic acinus morphology0.0000005926Highly InformativeDirect
Mammalian Phenotype (MP)increased leukemia incidence0.000003123Highly InformativeDirect
Mammalian Phenotype (MP)thick epidermis0.000005587Highly InformativeDirect
Mammalian Phenotype (MP)extramedullary hematopoiesis0.00002956Highly InformativeDirect
Mammalian Phenotype (MP)abnormal hair follicle morphology0.00006948Highly InformativeDirect
Mammalian Phenotype (MP)abnormal kidney size0.0002956Highly InformativeDirect
Mammalian Phenotype (MP)postnatal growth retardation0.000401Highly InformativeDirect
Mammalian Phenotype (MP)edema0.0009501Highly InformativeDirect
Mammalian Phenotype (MP)abnormal pericardial cavity morphology0.002662Highly InformativeInherited
Mammalian Phenotype (MP)abnormal holocrine gland morphology0.003309Highly InformativeInherited
Mammalian Phenotype (MP)abnormal retinal vasculature morphology0.005769Highly InformativeInherited

Document: MP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)cell0Least InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect
Zebrafish Anatomy (ZA)anatomical cluster0Moderately InformativeDirect

Document: ZA 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)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical system1Least InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)tail0InformativeDirect
Xenopus DEvelopment stage (XDE)post-embryonic stage0Least InformativeDirect
Xenopus DEvelopment stage (XDE)climax stage0Moderately 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)Transferases for other substituted phosphate groups0Highly InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR000800 SSF90193 Protein matches
Abstract The Notch domain is also called the 'DSL' domain or the Lin-12/Notch repeat (LNR). The LNR region is present only in Notch related proteins C-terminal to EGF repeats. The lin-12/Notch proteins act as transmembrane receptors for intercellular signals that specify cell fates during animal development. In response to a ligand, proteolytic cleavages release the intracellular domain of Notch, which then gains access to the nucleus and acts as a transcriptional co-activator [PubMed3119223]. The LNR region is supposed to negatively regulate the Lin-12/Notch proteins activity. It is a triplication of an around 35-40 amino acids module present on the extracellular part of the protein [PubMed7697721, PubMed8139658]. Each module contains six cysteine residues engaged in three disulphide bonds and three conserved aspartate and asparagine residues [PubMed3119223]. The biochemical characterization of a recombinantly expressed LIN-12.1 module from the human Notch1 receptor indicate that the disulphide bonds are formed between the first and fifth, second and fourth, and third and sixth cysteines. The formation of this particular disulphide isomer is favored by the presence of Ca2+, which is also required to maintain the structural integrity of the rLIN-12.1 module. The conserved aspartate and asparagine residues are likely to be important for Ca2+ binding, and thereby contribute to the native fold.

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) · 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 1 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 Notch 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 1 hidden Markov models representing the Notch 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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · Internal database links ]