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SMAD MH1 domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   SMAD MH1 domain [ 56365]
Superfamily:   SMAD MH1 domain [ 56366]
Families:   SMAD MH1 domain [ 56367]

 Superfamily statistics
Genomes (125) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,063 1,063 2
Proteins 1,057 1,060 2

 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) developmental process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 2.655e-12 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.08e-09 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.01821 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.03474 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.04678 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.084 Least Informative Inherited
Biological Process (BP) signal transduction 0 Moderately Informative Direct
Biological Process (BP) cell differentiation 0 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 7.835e-15 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 6.117e-14 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 2.832e-11 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 3.041e-10 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 2.031e-08 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 2.404e-07 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 4.579e-07 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 1.128e-06 Moderately Informative Direct
Biological Process (BP) response to organic substance 2.357e-06 Moderately Informative Direct
Biological Process (BP) reproduction 2.504e-05 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0.0006583 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.0009788 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.7673 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.5363 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.6779 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.01365 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.01759 Moderately Informative Inherited
Biological Process (BP) organ development 0.3597 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.1019 Moderately Informative Inherited
Biological Process (BP) tissue development 0.002963 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.01224 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.03344 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.1216 Moderately Informative Inherited
Biological Process (BP) system process 0.6597 Moderately Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1.483e-13 Informative Direct
Biological Process (BP) growth 1.679e-13 Informative Direct
Biological Process (BP) cardiovascular system development 2.903e-11 Informative Direct
Biological Process (BP) locomotion 3.757e-10 Informative Direct
Biological Process (BP) generation of neurons 3.039e-09 Informative Direct
Biological Process (BP) tissue morphogenesis 5.797e-09 Informative Direct
Biological Process (BP) tube development 9.426e-09 Informative Direct
Biological Process (BP) protein phosphorylation 1.033e-08 Informative Direct
Biological Process (BP) cell proliferation 1.635e-07 Informative Direct
Biological Process (BP) embryonic morphogenesis 2.868e-07 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 3.639e-07 Informative Direct
Biological Process (BP) positive regulation of developmental process 5.312e-07 Informative Direct
Biological Process (BP) negative regulation of developmental process 2.805e-05 Informative Direct
Biological Process (BP) cell projection organization 5.507e-05 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.000176 Informative Direct
Biological Process (BP) sexual reproduction 0.0002995 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0003655 Informative Direct
Biological Process (BP) single organism reproductive process 0.000376 Informative Direct
Biological Process (BP) regulation of growth 0.0004493 Informative Direct
Biological Process (BP) organ morphogenesis 0.0006606 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.0009833 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.6208 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.2803 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.2372 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.2779 Informative Inherited
Biological Process (BP) sensory organ development 0.7824 Informative Inherited
Biological Process (BP) synaptic transmission 0.1394 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.00625 Informative Inherited
Biological Process (BP) gland development 0.005774 Informative Inherited
Biological Process (BP) chordate embryonic development 0.08038 Informative Inherited
Biological Process (BP) embryonic organ development 0.009622 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.01807 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.007463 Informative Inherited
Biological Process (BP) response to external stimulus 0.03402 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.3753 Informative Inherited
Biological Process (BP) central nervous system development 0.4995 Informative Inherited
Biological Process (BP) muscle tissue development 0.7966 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.445 Informative Inherited
Biological Process (BP) regulation of cell development 0.9536 Informative Inherited
Biological Process (BP) epithelium development 0.3505 Informative Inherited
Biological Process (BP) regulation of binding 0 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) cellular response to growth factor stimulus 0 Highly Informative Direct
Biological Process (BP) axonogenesis 4.008e-15 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 4.008e-15 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 4.842e-11 Highly Informative Direct
Biological Process (BP) skeletal system development 4.7e-10 Highly Informative Direct
Biological Process (BP) ossification 1.206e-08 Highly Informative Direct
Biological Process (BP) gastrulation 2.727e-08 Highly Informative Direct
Biological Process (BP) cell fate commitment 4.025e-07 Highly Informative Direct
Biological Process (BP) developmental growth 9.964e-07 Highly Informative Direct
Biological Process (BP) post-embryonic development 1.582e-06 Highly Informative Direct
Biological Process (BP) stem cell development 1.294e-05 Highly Informative Direct
Biological Process (BP) germ cell development 2.161e-05 Highly Informative Direct
Biological Process (BP) positive regulation of growth 2.2e-05 Highly Informative Direct
Biological Process (BP) chemotaxis 0.000125 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 0.0003862 Highly Informative Direct
Biological Process (BP) regulation of organ morphogenesis 0.0005559 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.0005813 Highly Informative Direct
Biological Process (BP) negative regulation of signal transduction 0.158 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.004307 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.03033 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.001653 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.2558 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.003331 Highly Informative Inherited
Biological Process (BP) cell division 0.00117 Highly Informative Inherited
Biological Process (BP) endocrine system development 0.001698 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.1177 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.02647 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.65 Highly Informative Inherited
Molecular Function (MF) binding 3.036e-13 Least Informative Direct
Molecular Function (MF) heterocyclic compound binding 5.104e-13 Moderately Informative Direct
Molecular Function (MF) organic cyclic compound binding 9.842e-13 Moderately Informative Direct
Molecular Function (MF) protein binding 4.371e-05 Moderately Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 3.524e-12 Informative Direct
Molecular Function (MF) molecular transducer activity 0.0003701 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 3.605e-13 Highly Informative Direct
Molecular Function (MF) chromatin binding 1.841e-12 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.0004033 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0.005962 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 2.816e-10 Least Informative Direct
Cellular Component (CC) protein complex 0.0002662 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.5196 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 1.047e-07 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.1028 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 4.271e-05 Informative Direct
Cellular Component (CC) transcription factor complex 4.038e-14 Highly Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0Least InformativeDirect
Disease Ontology (DO)immune system disease0.101Least InformativeInherited
Disease Ontology (DO)skin disease0.000373Moderately InformativeDirect
Disease Ontology (DO)kidney disease0.002892Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.01011Moderately InformativeInherited
Disease Ontology (DO)rheumatic disease7.974e-05InformativeDirect
Disease Ontology (DO)nephritis0.0001724InformativeDirect
Disease Ontology (DO)connective tissue disease0.002129InformativeInherited

Document: DO 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
Phenotypic Abnormality (PA)Malformation of the heart and great vessels0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vasculature0Moderately InformativeDirect
Phenotypic Abnormality (PA)Generalized abnormality of skin0.04296Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the systemic arterial tree0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the aortic valve2.376e-05InformativeDirect
Phenotypic Abnormality (PA)Vascular skin abnormality0.0009045InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0Least InformativeDirect
Mammalian Phenotype (MP)abnormal homeostasis0.01277Least InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal cardiovascular development0Moderately InformativeDirect
Mammalian Phenotype (MP)preweaning lethality0Moderately InformativeDirect
Mammalian Phenotype (MP)tumorigenesis0.0003806Moderately InformativeDirect
Mammalian Phenotype (MP)embryogenesis phenotype0.006229Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.04012Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.1631Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.1875Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)malignant tumors3.994e-06InformativeDirect
Mammalian Phenotype (MP)abnormal fertility/fecundity9.227e-05InformativeDirect
Mammalian Phenotype (MP)abnormal craniofacial development0.0001444InformativeDirect
Mammalian Phenotype (MP)abnormal embryonic tissue morphology0.0004357InformativeDirect
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.01031InformativeInherited
Mammalian Phenotype (MP)abnormal developmental patterning0.01725InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.07438InformativeInherited
Mammalian Phenotype (MP)prenatal lethality0.217InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number0.4235InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.8679InformativeInherited
Mammalian Phenotype (MP)gonad tumor1.273e-10Highly InformativeDirect
Mammalian Phenotype (MP)absent primordial germ cells5.612e-09Highly InformativeDirect
Mammalian Phenotype (MP)abnormal gastrulation4.841e-05Highly InformativeDirect
Mammalian Phenotype (MP)premature aging6.216e-05Highly InformativeDirect
Mammalian Phenotype (MP)decreased litter size8.494e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal embryonic growth/weight/body size0.0003635Highly InformativeDirect
Mammalian Phenotype (MP)embryonic lethality during organogenesis0.000569Highly InformativeDirect
Mammalian Phenotype (MP)internal hemorrhage0.002123Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary hormone level0.0241Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant8.212e-05Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.00193Least InformativeInherited
Worm Phenotype (WP)pericellular component development variant3.469e-05Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.002327Moderately InformativeInherited
Worm Phenotype (WP)organ system development variant0.005766Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.5049Moderately InformativeInherited
Worm Phenotype (WP)sensillum morphology variant3.069e-09InformativeDirect
Worm Phenotype (WP)transgene expression reduced6.374e-07InformativeDirect
Worm Phenotype (WP)male morphology variant9.891e-07InformativeDirect
Worm Phenotype (WP)body length variant0.0004989InformativeDirect
Worm Phenotype (WP)body width variant0.000607InformativeDirect
Worm Phenotype (WP)male tail morphology variant3.424e-08Highly InformativeDirect
Worm Phenotype (WP)cuticle development variant3.424e-08Highly InformativeDirect
Worm Phenotype (WP)male nervous system morphology variant1.187e-07Highly InformativeDirect
Worm Phenotype (WP)nervous system development variant2.445e-06Highly InformativeDirect
Worm Phenotype (WP)dauer development variant6.988e-06Highly InformativeDirect
Worm Phenotype (WP)dauer arrest variant1.654e-05Highly InformativeDirect
Worm Phenotype (WP)small2.192e-05Highly InformativeDirect
Worm Phenotype (WP)germline proliferation variant2.454e-05Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality during development0Least InformativeDirect
Fly Phenotype (FP)neuroanatomy defective0Moderately InformativeDirect
Fly Phenotype (FP)mitotic cell cycle defective0InformativeDirect

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)organ system0Least InformativeDirect
Fly Anatomy (FA)cell0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)thoracic segment0Moderately InformativeDirect
Fly Anatomy (FA)adult segment0Moderately InformativeDirect
Fly Anatomy (FA)adult thorax0Moderately InformativeDirect
Fly Anatomy (FA)peripheral nervous system0Moderately InformativeDirect
Fly Anatomy (FA)neuron0Moderately InformativeDirect
Fly Anatomy (FA)late embryo0Moderately InformativeDirect
Fly Anatomy (FA)adult integumentary system0Moderately InformativeDirect
Fly Anatomy (FA)appendage0Moderately InformativeDirect
Fly Anatomy (FA)portion of tissue0Moderately InformativeDirect
Fly Anatomy (FA)developing material anatomical entity0Moderately InformativeDirect
Fly Anatomy (FA)tagmatic subdivision of integument0Moderately InformativeDirect
Fly Anatomy (FA)multi-cell-component structure0.00838Moderately InformativeInherited
Fly Anatomy (FA)gonad0.02396Moderately InformativeInherited
Fly Anatomy (FA)anatomical group0.03777Moderately InformativeInherited
Fly Anatomy (FA)head0.4196Moderately InformativeInherited
Fly Anatomy (FA)abdominal segment0InformativeDirect
Fly Anatomy (FA)larval segment0InformativeDirect
Fly Anatomy (FA)synaptic neuropil domain0.0004269InformativeDirect
Fly Anatomy (FA)neuromere0.0009064InformativeDirect
Fly Anatomy (FA)procephalic segment0.004565InformativeInherited
Fly Anatomy (FA)cell component0.005607InformativeInherited
Fly Anatomy (FA)ovariole0.009714InformativeInherited
Fly Anatomy (FA)prepupa0.01554InformativeInherited
Fly Anatomy (FA)pupa0.01725InformativeInherited
Fly Anatomy (FA)germline cell0.02595InformativeInherited
Fly Anatomy (FA)female germline stem cell1.792e-06Highly InformativeDirect
Fly Anatomy (FA)synapse0.0006091Highly InformativeDirect
Fly Anatomy (FA)protocerebrum0.0006237Highly InformativeDirect
Fly Anatomy (FA)larval thoracic segment0.03271Highly InformativeInherited
Fly Anatomy (FA)imaginal disc0.06828Highly InformativeInherited

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)male genitalia0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0.6155Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.0422Moderately InformativeInherited
Xenopus ANatomical entity (XAN)notochord0.0001486InformativeDirect
Xenopus ANatomical entity (XAN)endoderm0.0005137InformativeDirect
Xenopus ANatomical entity (XAN)anatomical direction0.000834InformativeDirect
Xenopus ANatomical entity (XAN)heart0.05769InformativeInherited
Xenopus ANatomical entity (XAN)tail bud4.309e-05Highly InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1.597e-07Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationDevelopmental protein1.634e-05Moderately InformativeDirect
Post-translational modificationPhosphoprotein5.1e-08Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationAcetylation2.201e-14Moderately InformativeDirect
Post-translational modificationIsopeptide bond1.22e-08Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR013019 SSF56366 Protein matches
Abstract

Smad proteins are signal transducers and transcriptional comodulators of the TGF-beta superfamily of ligands, which play a central role in regulating a broad range of cellular responses, including cell growth, differentiation, and specification of developmental fate, in diverse organisms from C. elegans to humans. Ligand binding to specific transmembrane receptor kinases induces receptor oligomerization and phosphorylation of the receptor specific Smad protein (R-Smad) in the cytoplasm. The R-Smad proteins regulate distinct signaling pathways. Smad1, 5 and 8 mediate the signals of bone morphogenetic proteins (BMPs), while Smad2 and 3 mediate the signals of activins and TGF-betas. Upon ligand stimulation, R-Smad proteins are phosphorylated at the conserved C-terminal tail sequence, SS*xS* (where S* denotes a site of phosphorylation). The phosphorylated states of R-Smad proteins form heteromeric complexes with Smad4 and are translocated into the nucleus. In the nucleus, the heteromeric complexes function as gene-specific transcription activators by binding to promoters and interacting with transcriptional coactivators. Smad6 and Smad7 are inhibitory Smad proteins that inhibit TGF-beta signaling by interfering with either receptor-mediated phosphorylation or hetero-oligomerization between Smad4 and R-Smad proteins. Smad proteins comprise two conserved MAD homology domains, one in the N-terminus (MH1) and one in the C-terminus (MH2), separated by a more variable, proline-rich linker region. The MH1 domain has a role in DNA binding and negatively regulates the functions of MH2 domain, whereas the MH2 domain is responsible for transactivation and mediates phosphorylation-triggered heteromeric assembly between Smad4 and R-Smad [PubMed9741623, PubMed11779503].

The MH1 domain adopts a compact globular fold, with four alpha helices, six short beta strands, and five loops. The N-terminal half of the sequence consists of three alpha helices, and the C-terminal half contains all six beta strands, which form two small beta sheets and one beta hairpin. The fourth alpha helix is located in the hydrophobic core of the molecule, surrounded by the N-terminal three alpha helices on one side and by the two small beta sheets and the beta hairpin on the other side. These secondary structural elements are connected with five intervening surface loops. The MH1 domain employs a novel DNA-binding motif, an 11-residue beta-hairpin formed by strands B2 and B3, to contact DNA in the major groove. Two residues in the L3 loop and immediately preceding strand B2 also contribute significantly to DNA recognition. The beta hairpin appears to protrude outward from the globular MH1 core [PubMed9741623].


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) · Disease Ontology (DO) · 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 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 SMAD MH1 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 SMAD MH1 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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.