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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 (1,762) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 17,190 79,873 38
Proteins 16,412 75,224 37


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

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 agent0.0003293Moderately InformativeDirect
Disease Ontology (DO)genetic disease0.03828Moderately InformativeInherited
Disease Ontology (DO)autosomal dominant disease0.0007023InformativeDirect

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 system0.3662Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.8648Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.9447Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.4577Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature0.5872Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.6979Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal systemic arterial morphology0.1613InformativeInherited
Phenotypic Abnormality (PA)Abnormality of eye movement0.2057InformativeInherited
Phenotypic Abnormality (PA)Abnormal morphology of the great vessels0.2706InformativeInherited
Phenotypic Abnormality (PA)Abnormal lip morphology0.5168InformativeInherited
Phenotypic Abnormality (PA)Aortic dissection0.0002767Highly InformativeDirect
Phenotypic Abnormality (PA)Cleft upper lip0.04295Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.05146Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1464Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.2899Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.4431Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4803Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.00187Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.007904Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.02705Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.0522Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.07494Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.1077Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.1212Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.1399Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.1504Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.1538Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.172Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.2091Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell physiology0.2383Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal induced morbidity/mortality0.2557Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.2995Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.5741Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.7719Moderately InformativeInherited
Mammalian Phenotype (MP)increased gland tumor incidence0.0001691InformativeDirect
Mammalian Phenotype (MP)increased carcinoma incidence0.0002095InformativeDirect
Mammalian Phenotype (MP)chromosomal instability0.0002899InformativeDirect
Mammalian Phenotype (MP)abnormal response to radiation0.002789InformativeInherited
Mammalian Phenotype (MP)abnormal germ cell morphology0.009679InformativeInherited
Mammalian Phenotype (MP)abnormal B cell differentiation0.01172InformativeInherited
Mammalian Phenotype (MP)abnormal interferon secretion0.03819InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.06511InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.08231InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.12InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.2007InformativeInherited
Mammalian Phenotype (MP)abnormal embryo development0.2261InformativeInherited
Mammalian Phenotype (MP)abnormal fertility/fecundity0.4073InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.6911InformativeInherited
Mammalian Phenotype (MP)increased gonad tumor incidence0.000001964Highly InformativeDirect
Mammalian Phenotype (MP)abnormal embryonic epiblast morphology0.00002549Highly InformativeDirect
Mammalian Phenotype (MP)decreased interferon-alpha secretion0.0001577Highly InformativeDirect
Mammalian Phenotype (MP)abnormal oocyte number0.0004292Highly InformativeDirect
Mammalian Phenotype (MP)abnormal digestive system development0.0004294Highly InformativeDirect
Mammalian Phenotype (MP)abnormal gastrulation0.002346Highly InformativeInherited
Mammalian Phenotype (MP)premature aging0.00447Highly InformativeInherited
Mammalian Phenotype (MP)decreased dendritic cell number0.005298Highly InformativeInherited
Mammalian Phenotype (MP)decreased primordial germ cell number0.01496Highly InformativeInherited
Mammalian Phenotype (MP)abnormal ovarian follicle morphology0.0158Highly InformativeInherited
Mammalian Phenotype (MP)absent germ cells0.1696Highly InformativeInherited
Mammalian Phenotype (MP)internal hemorrhage0.3395Highly 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 variant0.0002751Least InformativeDirect
Worm Phenotype (WP)cell development variant0.002962Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.005216Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.0213Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.2566Least InformativeInherited
Worm Phenotype (WP)larval development variant0.81Least InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.00007112Moderately InformativeDirect
Worm Phenotype (WP)pericellular component development variant0.002166Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.0798Moderately InformativeInherited
Worm Phenotype (WP)body region morphology variant0.0809Moderately InformativeInherited
Worm Phenotype (WP)neuron development variant0.2804Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.2909Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6931Moderately InformativeInherited
Worm Phenotype (WP)velocity of movement variant0.0002176InformativeDirect
Worm Phenotype (WP)directionality variant0.0004495InformativeDirect
Worm Phenotype (WP)body bend variant0.0006887InformativeDirect
Worm Phenotype (WP)male morphology variant0.001822InformativeInherited
Worm Phenotype (WP)localized movement variant0.003643InformativeInherited
Worm Phenotype (WP)axon outgrowth variant0.004281InformativeInherited
Worm Phenotype (WP)tail morphology variant0.00601InformativeInherited
Worm Phenotype (WP)forward locomotion variant0.01273InformativeInherited
Worm Phenotype (WP)body posture variant0.01302InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.02408InformativeInherited
Worm Phenotype (WP)lipid metabolism variant0.04418InformativeInherited
Worm Phenotype (WP)small0.05165InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.05929InformativeInherited
Worm Phenotype (WP)neuron morphology variant0.1093InformativeInherited
Worm Phenotype (WP)locomotion reduced0.7359InformativeInherited
Worm Phenotype (WP)dauer larva physiology variant1InformativeInherited
Worm Phenotype (WP)cuticle development variant0.000001885Highly InformativeDirect
Worm Phenotype (WP)male nervous system development variant0.00002227Highly InformativeDirect
Worm Phenotype (WP)social behavior variant0.00002318Highly InformativeDirect
Worm Phenotype (WP)short0.00003288Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.00004826Highly InformativeDirect
Worm Phenotype (WP)coiling frequency variant0.00006263Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.00006405Highly InformativeDirect
Worm Phenotype (WP)fat content reduced0.0001143Highly InformativeDirect
Worm Phenotype (WP)male tail morphology variant0.000116Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.0001189Highly InformativeDirect
Worm Phenotype (WP)backward point velocity variant0.0001189Highly InformativeDirect
Worm Phenotype (WP)dauer development variant0.0001336Highly InformativeDirect
Worm Phenotype (WP)pericellular component physiology variant0.000193Highly InformativeDirect
Worm Phenotype (WP)amplitude of sinusoidal movement variant0.000261Highly InformativeDirect
Worm Phenotype (WP)dye filling defect0.0002914Highly InformativeDirect
Worm Phenotype (WP)frequency of body bend variant0.0003046Highly InformativeDirect
Worm Phenotype (WP)cell fusion variant0.0008993Highly InformativeDirect
Worm Phenotype (WP)path curvature variant0.05724Highly InformativeInherited
Worm Phenotype (WP)male ray morphology variant0.2337Highly InformativeInherited
Worm Phenotype (WP)body posture wavelength variant0.3682Highly 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)decreased occurrence of cell division0.00002001Highly InformativeDirect

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 structure0.08572Least InformativeInherited
Fly Anatomy (FA)cell0.5354Least InformativeInherited
Fly Anatomy (FA)stem cell0.01193Moderately InformativeInherited
Fly Anatomy (FA)portion of tissue0.0232Moderately InformativeInherited
Fly Anatomy (FA)gonad0.06993Moderately InformativeInherited
Fly Anatomy (FA)germarium0.03147InformativeInherited
Fly Anatomy (FA)germline cell0.06958InformativeInherited
Fly Anatomy (FA)female germline stem cell0.0006857Highly InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.07826Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.1151Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.1806Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.5271Least InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.01809Moderately InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.03993Moderately InformativeInherited
Zebrafish Anatomy (ZA)cardiovascular system0.4011Moderately InformativeInherited
Zebrafish Anatomy (ZA)hematopoietic system0.000003583InformativeDirect
Zebrafish Anatomy (ZA)hematopoietic cell0.0001748InformativeDirect
Zebrafish Anatomy (ZA)primary germ layer0.05139InformativeInherited
Zebrafish Anatomy (ZA)blood vasculature0.06749InformativeInherited
Zebrafish Anatomy (ZA)embryonic structure0.2962InformativeInherited
Zebrafish Anatomy (ZA)mononuclear phagocyte0.00000002462Highly InformativeDirect
Zebrafish Anatomy (ZA)professional antigen presenting cell0.00000003732Highly InformativeDirect
Zebrafish Anatomy (ZA)intermediate cell mass of mesoderm0.000001026Highly InformativeDirect
Zebrafish Anatomy (ZA)floor plate0.00003991Highly InformativeDirect
Zebrafish Anatomy (ZA)vein0.0004266Highly InformativeDirect
Zebrafish Anatomy (ZA)neurogenic placode0.0007585Highly InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)trunk0.2707Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.3556Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.746Least InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.1466Moderately InformativeInherited
Xenopus ANatomical entity (XAN)cardiovascular system0.01039InformativeInherited

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)Hydrolases0.08389Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups0.131Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases0.5524Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Aminoacyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.000000000001123Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0.4811Moderately InformativeInherited
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase5.111e-16InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0.00000005667InformativeDirect
Enzyme Commission (EC)With reduced iron-sulfur protein as one donor, and incorporation of one atom of oxygen0Highly InformativeDirect
Enzyme Commission (EC)Exodeoxyribonucleases producing 5'-phosphomonoesters0Highly InformativeDirect
Enzyme Commission (EC)DNA-(apurinic or apyrimidinic site) lyase0.00005547Highly InformativeDirect

Document: EC 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 · 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) ]

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 27 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 27 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 · 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) · Internal database links ]