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.


SMAD/FHA domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   SMAD/FHA domain [ 49878]
Superfamily:   SMAD/FHA domain [ 49879] (4)
Families:   SMAD domain [ 49880] (4)
  FHA domain [ 49885] (11)
  Interferon regulatory factor 3 (IRF3), transactivation domain [ 101630]
  EssC N-terminal domain-like [ 141143]


Superfamily statistics
Genomes (1,755) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 16,926 35,177 38
Proteins 16,148 30,400 37


Functional annotation
General category Regulation
Detailed category DNA-binding

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) biological regulation 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.00000000000001409 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0000119 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0000122 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.0001007 Least Informative Direct
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.06024 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.03208 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.6388 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.006205 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.007788 Least Informative Inherited
Biological Process (BP) signaling 0 Moderately Informative Direct
Biological Process (BP) immune system process 0.00000000000007564 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000001788 Moderately Informative Direct
Biological Process (BP) reproduction 0.0000006717 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.000001158 Moderately Informative Direct
Biological Process (BP) cell communication 0.000001198 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00002612 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0001859 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.0006467 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.0009666 Moderately Informative Direct
Biological Process (BP) single-organism transport 0.525 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.2662 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.4833 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.5817 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.2169 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.9677 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.4146 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to stress 0.008659 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.001627 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.005318 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.06224 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.009586 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8709 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.05767 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.002655 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.2023 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.002246 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative biosynthetic process 0.8916 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.007757 Moderately Informative Inherited
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) microtubule-based process 0 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0.000000000000009009 Informative Direct
Biological Process (BP) regulation of cell cycle 0.000000000005277 Informative Direct
Biological Process (BP) cell surface receptor signaling pathway 0.0000000003209 Informative Direct
Biological Process (BP) DNA metabolic process 0.0000000003604 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.000003454 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.000005477 Informative Direct
Biological Process (BP) defense response to other organism 0.00005255 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.0001971 Informative Direct
Biological Process (BP) immune response 0.0003293 Informative Direct
Biological Process (BP) organelle fission 0.0004191 Informative Direct
Biological Process (BP) growth 0.0007325 Informative Direct
Biological Process (BP) embryo development 0.0008947 Informative Direct
Biological Process (BP) regulation of cell differentiation 0.6151 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.4581 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.661 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.9882 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) multi-organism cellular process 0.02479 Informative Inherited
Biological Process (BP) cell development 0.2631 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.3677 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.08261 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.1158 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.01341 Informative Inherited
Biological Process (BP) cytoskeleton organization 0.7783 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.04451 Informative Inherited
Biological Process (BP) regulation of cell proliferation 0.3802 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.4649 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.9065 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.1344 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.3105 Informative Inherited
Biological Process (BP) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.09195 Informative Inherited
Biological Process (BP) epithelium development 0.0669 Informative Inherited
Biological Process (BP) regulation of cellular amide metabolic process 1 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.2066 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.6268 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.8015 Informative Inherited
Biological Process (BP) response to cytokine 0.6855 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.1324 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.005594 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.516 Informative Inherited
Biological Process (BP) locomotion 0.1964 Informative Inherited
Biological Process (BP) negative regulation of cell communication 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 1 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 0.002275 Informative Inherited
Biological Process (BP) proteolysis 0.01635 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.07444 Informative Inherited
Biological Process (BP) animal organ morphogenesis 0.0205 Informative Inherited
Biological Process (BP) response to radiation 0.00284 Informative Inherited
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0.03035 Informative Inherited
Biological Process (BP) regulation of growth 0.01356 Informative Inherited
Biological Process (BP) post-embryonic development 0.04094 Informative Inherited
Biological Process (BP) generation of neurons 0.8285 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.05975 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.135 Informative Inherited
Biological Process (BP) single organism reproductive process 0.001716 Informative Inherited
Biological Process (BP) phosphorylation 0.01347 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.7386 Informative Inherited
Biological Process (BP) circulatory system development 0.004913 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) cell cycle checkpoint 0 Highly Informative Direct
Biological Process (BP) cellular response to growth factor stimulus 0 Highly Informative Direct
Biological Process (BP) establishment of organelle localization 0.0000000000001404 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0000000000007568 Highly Informative Direct
Biological Process (BP) lymphocyte activation 0.00000000002533 Highly Informative Direct
Biological Process (BP) microtubule-based movement 0.00000000004761 Highly Informative Direct
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.000000000818 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 0.000000001437 Highly Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.000000005828 Highly Informative Direct
Biological Process (BP) modification-dependent protein catabolic process 0.00000004803 Highly Informative Direct
Biological Process (BP) cell proliferation 0.0000001637 Highly Informative Direct
Biological Process (BP) DNA recombination 0.0000006576 Highly Informative Direct
Biological Process (BP) hemopoiesis 0.000004164 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.000007058 Highly Informative Direct
Biological Process (BP) protein modification by small protein conjugation 0.000007351 Highly Informative Direct
Biological Process (BP) instar larval or pupal morphogenesis 0.000007776 Highly Informative Direct
Biological Process (BP) regulation of fibroblast proliferation 0.0000132 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.00001884 Highly Informative Direct
Biological Process (BP) response to virus 0.00002725 Highly Informative Direct
Biological Process (BP) germ cell development 0.00005535 Highly Informative Direct
Biological Process (BP) chromosome organization 0.0001395 Highly Informative Direct
Biological Process (BP) cell division 0.0001629 Highly Informative Direct
Biological Process (BP) negative regulation of mitotic cell cycle 0.0001737 Highly Informative Direct
Biological Process (BP) amino sugar metabolic process 0.0002307 Highly Informative Direct
Biological Process (BP) cell growth 0.0007725 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.1049 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.9043 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 1 Highly Informative Inherited
Biological Process (BP) vesicle localization 0.7143 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.0139 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.07138 Highly Informative Inherited
Biological Process (BP) innate immune response 0.9868 Highly Informative Inherited
Biological Process (BP) cytokine-mediated signaling pathway 0.3662 Highly Informative Inherited
Biological Process (BP) positive regulation of nervous system development 0.2828 Highly Informative Inherited
Biological Process (BP) establishment or maintenance of cell polarity 0.02605 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.03799 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular component biogenesis 0.05313 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 0.01479 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.009151 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.1311 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 1 Highly Informative Inherited
Biological Process (BP) negative regulation of translation 0.4079 Highly Informative Inherited
Biological Process (BP) gene silencing 0.2186 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.8737 Highly Informative Inherited
Biological Process (BP) appendage development 0.02899 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 0.4934 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.003461 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.09816 Highly Informative Inherited
Biological Process (BP) neuron development 0.6696 Highly Informative Inherited
Biological Process (BP) chemotaxis 0.06679 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 0.001283 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.4141 Highly Informative Inherited
Biological Process (BP) histone modification 0.02462 Highly Informative Inherited
Biological Process (BP) regulation of cell shape 0.09751 Highly Informative Inherited
Biological Process (BP) sensory organ morphogenesis 0.7338 Highly Informative Inherited
Biological Process (BP) gliogenesis 0.03221 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.01352 Highly Informative Inherited
Biological Process (BP) metamorphosis 0.02163 Highly Informative Inherited
Biological Process (BP) tube morphogenesis 0.08765 Highly Informative Inherited
Biological Process (BP) cell projection organization 0.1517 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.1835 Highly Informative Inherited
Biological Process (BP) developmental growth involved in morphogenesis 0.002485 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.2949 Highly Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle phase transition 0.4941 Highly Informative Inherited
Biological Process (BP) nuclear chromosome segregation 1 Highly Informative Inherited
Biological Process (BP) mitotic nuclear division 1 Highly Informative Inherited
Biological Process (BP) aminoglycan biosynthetic process 0.001232 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.0163 Highly Informative Inherited
Biological Process (BP) gastrulation 0.004786 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 0.8763 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.4614 Least Informative Inherited
Molecular Function (MF) protein binding 0.000001329 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.00006106 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.001576 Moderately Informative Inherited
Molecular Function (MF) DNA binding 0.000002721 Informative Direct
Molecular Function (MF) transcription factor activity, sequence-specific DNA binding 0.00001886 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.0006255 Informative Direct
Molecular Function (MF) enzyme binding 0.2144 Informative Inherited
Molecular Function (MF) ATPase activity 0.9699 Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 1 Informative Inherited
Molecular Function (MF) signal transducer activity 0.1454 Informative Inherited
Molecular Function (MF) chromatin binding 0.000000003455 Highly Informative Direct
Molecular Function (MF) ubiquitin-like protein transferase activity 0.0000008134 Highly Informative Direct
Molecular Function (MF) protein phosphatase binding 0.00000716 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.00001751 Highly Informative Direct
Molecular Function (MF) small GTPase binding 0.0004142 Highly Informative Direct
Molecular Function (MF) tubulin binding 0.002819 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 0.0002598 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.001271 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.2895 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.001833 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.000418 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.02214 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 0.2453 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.00000000001293 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.0000003491 Informative Direct
Cellular Component (CC) nucleoplasm part 0.4408 Informative Inherited
Cellular Component (CC) cell junction 0.0816 Informative Inherited
Cellular Component (CC) cell-substrate junction 0.135 Highly Informative Inherited
Cellular Component (CC) anchoring junction 0.05401 Highly Informative Inherited
Cellular Component (CC) cell-cell junction 0.7459 Highly Informative Inherited
Cellular Component (CC) polymeric cytoskeletal fiber 0.593 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.1289Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.000000000000007375Moderately InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0.00000000823Moderately InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation0.000000000001841InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)disease by infectious agent0.0001809Moderately InformativeDirect
Disease Ontology (DO)genetic disease0.03332Moderately InformativeInherited
Disease Ontology (DO)autosomal dominant disease0.0005694InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1919Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the face0.6144Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of upper lip0.4844InformativeInherited
Phenotypic Abnormality (PA)Oral cleft0.2698Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.06067Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1739Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.1972Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.2727Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.4086Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4452Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.00217Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.008944Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.02953Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.04959Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.06354Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.1092Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.1254Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.1477Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.151Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.1511Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.1677Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.2068Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell physiology0.2394Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal induced morbidity/mortality0.2545Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.3301Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.5644Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.574Moderately InformativeInherited
Mammalian Phenotype (MP)increased gland tumor incidence0.000178InformativeDirect
Mammalian Phenotype (MP)increased carcinoma incidence0.0002381InformativeDirect
Mammalian Phenotype (MP)chromosomal instability0.0003159InformativeDirect
Mammalian Phenotype (MP)abnormal response to radiation0.002836InformativeInherited
Mammalian Phenotype (MP)abnormal germ cell morphology0.01004InformativeInherited
Mammalian Phenotype (MP)abnormal B cell differentiation0.01132InformativeInherited
Mammalian Phenotype (MP)abnormal interferon secretion0.03856InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.06334InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.08675InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.1183InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.2222InformativeInherited
Mammalian Phenotype (MP)abnormal embryo development0.2235InformativeInherited
Mammalian Phenotype (MP)abnormal fertility/fecundity0.4038InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.6972InformativeInherited
Mammalian Phenotype (MP)increased gonad tumor incidence0.000001981Highly InformativeDirect
Mammalian Phenotype (MP)abnormal embryonic epiblast morphology0.00002352Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cumulus expansion0.00002842Highly InformativeDirect
Mammalian Phenotype (MP)decreased interferon-alpha secretion0.0001668Highly InformativeDirect
Mammalian Phenotype (MP)abnormal digestive system development0.0004452Highly InformativeDirect
Mammalian Phenotype (MP)abnormal oocyte number0.0004637Highly InformativeDirect
Mammalian Phenotype (MP)absent primordial germ cells0.0007139Highly InformativeDirect
Mammalian Phenotype (MP)microcephaly0.0009535Highly InformativeDirect
Mammalian Phenotype (MP)abnormal gastrulation0.002482Highly InformativeInherited
Mammalian Phenotype (MP)premature aging0.004431Highly InformativeInherited
Mammalian Phenotype (MP)decreased dendritic cell number0.008632Highly InformativeInherited
Mammalian Phenotype (MP)internal hemorrhage0.3383Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism behavior variant0.0004602Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.001707Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.002233Least InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.00004108Moderately InformativeDirect
Worm Phenotype (WP)pericellular component development variant0.001964Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.06961Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.102Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.2731Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6767Moderately InformativeInherited
Worm Phenotype (WP)velocity of movement variant0.000161InformativeDirect
Worm Phenotype (WP)aldicarb response variant0.000658InformativeDirect
Worm Phenotype (WP)male morphology variant0.001358InformativeInherited
Worm Phenotype (WP)localized movement variant0.003448InformativeInherited
Worm Phenotype (WP)tail morphology variant0.004607InformativeInherited
Worm Phenotype (WP)body posture variant0.0109InformativeInherited
Worm Phenotype (WP)forward locomotion variant0.01101InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.03022InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.04776InformativeInherited
Worm Phenotype (WP)locomotor coordination variant0.05391InformativeInherited
Worm Phenotype (WP)body length variant0.4979InformativeInherited
Worm Phenotype (WP)locomotion reduced0.778InformativeInherited
Worm Phenotype (WP)cuticle development variant0.0000009521Highly InformativeDirect
Worm Phenotype (WP)cuticle physiology variant0.000002943Highly InformativeDirect
Worm Phenotype (WP)male nervous system development variant0.00001406Highly InformativeDirect
Worm Phenotype (WP)social behavior variant0.00001574Highly InformativeDirect
Worm Phenotype (WP)short0.00002219Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.0000372Highly InformativeDirect
Worm Phenotype (WP)coiling frequency0.00005208Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.00005611Highly InformativeDirect
Worm Phenotype (WP)male tail morphology variant0.00007313Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.00009766Highly InformativeDirect
Worm Phenotype (WP)backward point velocity variant0.0001004Highly InformativeDirect
Worm Phenotype (WP)male nervous system morphology variant0.000201Highly InformativeDirect
Worm Phenotype (WP)amplitude of sinusoidal movement variant0.0002141Highly InformativeDirect
Worm Phenotype (WP)frequency of body bend variant0.0002344Highly InformativeDirect
Worm Phenotype (WP)dauer development variant0.000299Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.0009876Highly InformativeDirect
Worm Phenotype (WP)path curvature variant0.06278Highly InformativeInherited
Worm Phenotype (WP)body posture wavelength variant0.3877Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect
Fly Phenotype (FP)mitotic cell cycle defective0.000006107InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0.07152Least InformativeInherited
Fly Anatomy (FA)cell0.4952Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.003918Moderately InformativeInherited
Fly Anatomy (FA)portion of tissue0.0128Moderately InformativeInherited
Fly Anatomy (FA)thoracic segment0.04703Moderately InformativeInherited
Fly Anatomy (FA)gonad0.06648Moderately InformativeInherited
Fly Anatomy (FA)prepupa0.006278InformativeInherited
Fly Anatomy (FA)pupa0.008689InformativeInherited
Fly Anatomy (FA)larval thorax0.0141InformativeInherited
Fly Anatomy (FA)ovariole0.02271InformativeInherited
Fly Anatomy (FA)imaginal precursor0.06712InformativeInherited
Fly Anatomy (FA)germline cell0.06775InformativeInherited
Fly Anatomy (FA)larval segment0.07616InformativeInherited
Fly Anatomy (FA)female germline stem cell0.0004769Highly InformativeDirect
Fly Anatomy (FA)wing disc0.0006639Highly InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.2495Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.2669Least InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.003249Moderately InformativeInherited
Zebrafish Anatomy (ZA)cell0.05019Moderately InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.07338Moderately InformativeInherited
Zebrafish Anatomy (ZA)motile cell0.0001119InformativeDirect
Zebrafish Anatomy (ZA)circulating cell0.0003033InformativeDirect
Zebrafish Anatomy (ZA)immune system0.01103InformativeInherited
Zebrafish Anatomy (ZA)mononuclear phagocyte0.000000000848Highly InformativeDirect
Zebrafish Anatomy (ZA)professional antigen presenting cell0.000000000848Highly InformativeDirect
Zebrafish Anatomy (ZA)intermediate cell mass of mesoderm0.0000002635Highly InformativeDirect
Zebrafish Anatomy (ZA)floor plate0.00001508Highly InformativeDirect
Zebrafish Anatomy (ZA)granulocyte0.00001846Highly InformativeDirect
Zebrafish Anatomy (ZA)embryonic structure0.2295Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)tissue0.3551Least InformativeInherited
Xenopus ANatomical entity (XAN)anatomical cluster0.4781Least InformativeInherited
Xenopus ANatomical entity (XAN)heart0.2986InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.000000004978Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases0.0637Least InformativeInherited
Enzyme Commission (EC)Lyases0.451Least InformativeInherited
Enzyme Commission (EC)Hydrolases0.9428Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.000000000000737Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0002382Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0.08626Moderately InformativeInherited
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0.0000000005973InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen0.0000000000000694Highly InformativeDirect
Enzyme Commission (EC)DNA-(apurinic or apyrimidinic site) lyase0.000003156Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0Moderately InformativeDirect
Biological processDNA damage0Moderately InformativeDirect
Biological processUbl conjugation pathway0.00000000093Moderately InformativeDirect
Biological processTranscription regulation0.0000003416Moderately InformativeDirect
Biological processImmunity0.000005791Moderately InformativeDirect
Biological processVirulence0.0004937Moderately InformativeDirect
Biological processDifferentiation0.000567Moderately InformativeDirect
Biological processMitosis0.0000000000004022InformativeDirect
Biological processMeiosis0.00000000002711InformativeDirect
Biological processInnate immunity0.00000001081InformativeDirect
Biological processAngiogenesis0.00000277InformativeDirect
Biological processCell adhesion0.000704InformativeDirect
Biological processAbscisic acid biosynthesis0Highly InformativeDirect
Biological processAntiviral defense0.000000000001052Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentMicrotubule0InformativeDirect
Cellular componentChromosome0.000000000000008301InformativeDirect
Cellular componentTelomere0.0000002861Highly InformativeDirect
DiseaseDisease mutation0.000363Least InformativeDirect
DiseaseNeurodegeneration0.0005887Highly InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0.00000000001643Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationActivator0.00000005081Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000001709Moderately InformativeDirect
Post-translational modificationKinase0.0419Moderately InformativeInherited
Post-translational modificationSerine/threonine-protein kinase0.000000003652InformativeDirect
Post-translational modificationChromatin regulator0.0000001201InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.00007644Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.00000000000001019Moderately InformativeDirect
Post-translational modificationADP-ribosylation0.0000004246Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0.0000000001072Least InformativeDirect
UniPathway (UP)protein ubiquitination0.0001099Moderately InformativeDirect
UniPathway (UP)plant hormone metabolism0InformativeDirect
UniPathway (UP)terpene biosynthesis0.00000000000001226InformativeDirect
UniPathway (UP)plant hormone biosynthesis0Highly InformativeDirect
UniPathway (UP)sesquiterpene biosynthesis0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR008984 SSF49879 Protein matches
Abstract

FHA and SMAD (MH2) domains share a common structure consisting of a sandwich of eleven beta strands in two sheets with Greek key topology. Forkhead-associated (FHA) domains were originally identified as a sequence profile of about 75 amino acids, whereas the full-length domain is closer to about 150 amino acids. FHA domains are found in transcription factors, kinesin motors, and in a variety of other signalling molecules in organisms ranging from eubacteria to humans. FHA domains are protein-protein interaction domains that are specific for phosphoproteins. FHA-containing proteins function in maintaining cell-cycle checkpoints, DNA repair and transcriptional regulation. FHA domain proteins include the Chk2/Rad53/Cds1 family of proteins that contain one or more FHA domains, as well as a Ser/Thr kinase domain [PubMed11106755, PubMed12121644, PubMed12049740].

SMAD domain proteins are found in a range of species from nematodes to humans. These highly conserved proteins contain an N-terminal MH1 domain that contacts DNA, and is separated by a short linker region from the C-terminal MH2 domain, the later showing a striking similarity to FHA domains. SMAD proteins mediate signalling by the TGF-beta/activin/BMP-2/4 cytokines from receptor Ser/Thr protein kinases at the cell surface to the nucleus. SMAD proteins fall into three functional classes: the receptor-regulated SMADs (R-SMADs), including SMAD1, -2, -3, -5, and -8, each of which is involved in a ligand-specific signalling pathway [PubMed11779503]; the comediator SMADs (co-SMADs), including SMAD4, which interact with R-SMADs to participate in signalling [PubMed9214508]; and the inhibitory SMADs (I-SMADs), including SMAD6 and -7, which block the activation of R-SMADs and Co-SMADs, thereby negatively regulating signalling pathways [PubMed11483516].


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) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 19 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 SMAD/FHA 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 19 hidden Markov models representing the SMAD/FHA 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 · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]