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Homeodomain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   DNA/RNA-binding 3-helical bundle [ 46688] (14)
Superfamily:   Homeodomain-like [ 46689] (19)
Families:   Homeodomain [ 46690] (40)
  Recombinase DNA-binding domain [ 46728] (5)
  Myb/SANT domain [ 46739] (15)
  SLIDE domain [ 100998]
  GARP response regulators [ 81683]
  DNA-binding domain of telomeric protein [ 46745] (2)
  Paired domain [ 46748] (3)
  DNA-binding domain of rap1 [ 46753]
  Centromere-binding [ 46756] (2)
  FIS-like [ 100918] (4)
  AraC type transcriptional activator [ 46759] (2)
  Tetracyclin repressor-like, N-terminal domain [ 46764] (34)
  Middle operon regulator, Mor [ 109659]
  Psq domain [ 140213]
  Alr1493-like [ 140216]
  Nanomeric phage protein-like [ 140219]
  SWIRM domain [ 140222] (3)
  Cgl2762-like [ 158260]
  RpiR-like [ 158263]


Superfamily statistics
Genomes (2,989) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 218,252 1,404,420 207
Proteins 189,461 1,198,814 197


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)Phosphotransferases with an alcohol group as accep0.0000000007689Moderately InformativeDirect
Enzyme Commission (EC)Glucokinase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)endocrine system disease0.6967Moderately InformativeInherited

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 inheritance0.000001719Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0.03071Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.09222Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.2062Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.2306Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.6579Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.9434Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.1922Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal skull morphology0.2074Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.2677Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye morphology0.3104Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.4125Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.4189Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the nose0.6232Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.8381Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.8747Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.9678Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal lip morphology0.008741InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thyroid gland0.02217InformativeInherited
Phenotypic Abnormality (PA)Abnormal nasal morphology0.07534InformativeInherited
Phenotypic Abnormality (PA)Abnormal palate morphology0.09047InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.1827InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the calvaria0.187InformativeInherited
Phenotypic Abnormality (PA)Short stature0.2161InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the pancreas0.241InformativeInherited
Phenotypic Abnormality (PA)Abdominal symptom0.6141InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the anterior pituitary0.7849InformativeInherited
Phenotypic Abnormality (PA)Abnormal cornea morphology0.8484InformativeInherited
Phenotypic Abnormality (PA)Abdominal distention0.0003777Highly InformativeDirect
Phenotypic Abnormality (PA)Oral cleft0.002605Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of circulating adrenocorticotropin level0.00579Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal hard palate morphology0.0108Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal pancreas morphology0.01106Highly InformativeInherited
Phenotypic Abnormality (PA)Midline defect of the nose0.01441Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal ureter physiology0.0439Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cervical spine0.2532Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cheek0.4219Highly InformativeInherited
Phenotypic Abnormality (PA)Reduced bone mineral density0.8819Highly InformativeInherited
Phenotypic Abnormality (PA)Anterior hypopituitarism0.9491Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.0000000000008443Least InformativeDirect
Mammalian Phenotype (MP)growth/size/body region phenotype0.00000002891Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0.000000062Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.005548Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.3623Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7351Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)lethality during fetal growth through weaning0.0000000000005869Moderately InformativeDirect
Mammalian Phenotype (MP)embryo phenotype0.000000000005681Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.0000000003772Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.0000003161Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.000003796Moderately InformativeDirect
Mammalian Phenotype (MP)respiratory system phenotype0.00001281Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal digestive system morphology0.0007252Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal muscle morphology0.006682Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.01296Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.01742Moderately InformativeInherited
Mammalian Phenotype (MP)reproductive system phenotype0.04157Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.04699Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.04834Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.1903Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.3062Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.3356Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.4504Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.6997Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.8144Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)perinatal lethality0.0000000004898InformativeDirect
Mammalian Phenotype (MP)abnormal head morphology0.000000545InformativeDirect
Mammalian Phenotype (MP)normal phenotype0.000007996InformativeDirect
Mammalian Phenotype (MP)abnormal cell differentiation0.00006112InformativeDirect
Mammalian Phenotype (MP)abnormal gas homeostasis0.00006789InformativeDirect
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.0001032InformativeDirect
Mammalian Phenotype (MP)abnormal spinal cord morphology0.0002997InformativeDirect
Mammalian Phenotype (MP)abnormal eye development0.001036InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.001292InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.002027InformativeInherited
Mammalian Phenotype (MP)abnormal vertebrae morphology0.002412InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.002958InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.002996InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.01841InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.03284InformativeInherited
Mammalian Phenotype (MP)abnormal hypaxial muscle morphology0.06243InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.06674InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.09499InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology0.1184InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.1307InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.1738InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2028InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.2361InformativeInherited
Mammalian Phenotype (MP)abnormal sex determination0.2757InformativeInherited
Mammalian Phenotype (MP)abnormal pancreas morphology0.3492InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive gland morphology0.5317InformativeInherited
Mammalian Phenotype (MP)abnormal viscerocranium morphology0.6038InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.6484InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.6803InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.7615InformativeInherited
Mammalian Phenotype (MP)abnormal limb morphology0.8223InformativeInherited
Mammalian Phenotype (MP)abnormal limbic system morphology0.8394InformativeInherited
Mammalian Phenotype (MP)abnormal cerebral hemisphere morphology0.8531InformativeInherited
Mammalian Phenotype (MP)abnormal spleen morphology0.9629InformativeInherited
Mammalian Phenotype (MP)abnormal cerebellum morphology1InformativeInherited
Mammalian Phenotype (MP)cyanosis0.000000003002Highly InformativeDirect
Mammalian Phenotype (MP)abnormal middle ear morphology0.000000003812Highly InformativeDirect
Mammalian Phenotype (MP)abnormal joint morphology0.00000009914Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.0000006863Highly InformativeDirect
Mammalian Phenotype (MP)abnormal brain ventricle morphology0.000001399Highly InformativeDirect
Mammalian Phenotype (MP)distended abdomen0.000001592Highly InformativeDirect
Mammalian Phenotype (MP)abnormal forelimb morphology0.000005184Highly InformativeDirect
Mammalian Phenotype (MP)abnormal secondary palate development0.000005645Highly InformativeDirect
Mammalian Phenotype (MP)postnatal lethality0.00001539Highly InformativeDirect
Mammalian Phenotype (MP)abnormal neurocranium morphology0.00002119Highly InformativeDirect
Mammalian Phenotype (MP)abnormal vas deferens morphology0.00003945Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circumventricular organ morphology0.00005706Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mandibular coronoid process morphology0.0001872Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nose morphology0.0003128Highly InformativeDirect
Mammalian Phenotype (MP)abnormal telencephalon development0.0003451Highly InformativeDirect
Mammalian Phenotype (MP)abnormal kidney development0.00044Highly InformativeDirect
Mammalian Phenotype (MP)abnormal right subclavian artery morphology0.0006178Highly InformativeDirect
Mammalian Phenotype (MP)impaired branching involved in ureteric bud morphogenesis0.0006486Highly InformativeDirect
Mammalian Phenotype (MP)abnormal basicranium morphology0.0007985Highly InformativeDirect
Mammalian Phenotype (MP)abnormal tongue morphology0.001191Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aortic arch morphology0.00156Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary gland morphology0.007706Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.01156Highly InformativeInherited
Mammalian Phenotype (MP)abnormal optic nerve morphology0.01399Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sternum morphology0.01559Highly InformativeInherited
Mammalian Phenotype (MP)abnormal limb long bone morphology0.02088Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.02595Highly InformativeInherited
Mammalian Phenotype (MP)abnormal rib morphology0.02944Highly InformativeInherited
Mammalian Phenotype (MP)abnormal alveolar process morphology0.2641Highly InformativeInherited
Mammalian Phenotype (MP)abnormal olfactory bulb layer morphology0.2678Highly InformativeInherited
Mammalian Phenotype (MP)abnormal trabecular meshwork morphology0.2768Highly InformativeInherited
Mammalian Phenotype (MP)abnormal mesonephros morphology0.2914Highly InformativeInherited
Mammalian Phenotype (MP)abnormal food intake0.4946Highly InformativeInherited
Mammalian Phenotype (MP)abnormal epididymis morphology0.6153Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pancreatic islet morphology0.9795Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0.00000007369Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0000001411Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000002231Least InformativeDirect
Worm Phenotype (WP)blast cell physiology variant0.09996Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.1005Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.161Least InformativeInherited
Worm Phenotype (WP)larval lethal0.2731Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.7862Least InformativeInherited
Worm Phenotype (WP)body region morphology variant0.0000000001355Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0000000001355Moderately InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.0000000001394Moderately InformativeDirect
Worm Phenotype (WP)adult body morphology variant0.0000000001434Moderately InformativeDirect
Worm Phenotype (WP)body morphology variant0.0000000002806Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.00000004273Moderately InformativeDirect
Worm Phenotype (WP)nervous system morphology variant0.00001897Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.6899Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.7469Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.832Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.9424Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9893Moderately InformativeInherited
Worm Phenotype (WP)drug response variant1Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant1Moderately InformativeInherited
Worm Phenotype (WP)male morphology variant0.00000000005899InformativeDirect
Worm Phenotype (WP)tail morphology variant0.0000000001118InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.06379InformativeInherited
Worm Phenotype (WP)directionality variant0.06808InformativeInherited
Worm Phenotype (WP)protein metabolism variant0.07364InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.1346InformativeInherited
Worm Phenotype (WP)vulva development variant0.159InformativeInherited
Worm Phenotype (WP)body posture variant0.1906InformativeInherited
Worm Phenotype (WP)egg laying variant0.2755InformativeInherited
Worm Phenotype (WP)locomotion reduced0.5819InformativeInherited
Worm Phenotype (WP)drug resistant0.6938InformativeInherited
Worm Phenotype (WP)VPC competence variant1InformativeInherited
Worm Phenotype (WP)cell number increased1InformativeInherited
Worm Phenotype (WP)lineage variant0.00000004353Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.00000007414Highly InformativeDirect
Worm Phenotype (WP)body axis morphology variant0.0000007915Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.00001469Highly InformativeDirect
Worm Phenotype (WP)cell number decreased0.00004664Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.00005693Highly InformativeDirect
Worm Phenotype (WP)growth rate variant0.0001241Highly InformativeDirect
Worm Phenotype (WP)neuronal cell fate specification variant0.0002401Highly InformativeDirect
Worm Phenotype (WP)vulvaless0.0003093Highly InformativeDirect
Worm Phenotype (WP)male tail development variant0.0003186Highly InformativeDirect
Worm Phenotype (WP)coiling frequency0.0003859Highly InformativeDirect
Worm Phenotype (WP)multiple anchor cells0.0004485Highly InformativeDirect
Worm Phenotype (WP)male nervous system development variant0.0006493Highly InformativeDirect
Worm Phenotype (WP)protein degradation variant0.0007578Highly InformativeDirect
Worm Phenotype (WP)cell fusion variant0.0008238Highly InformativeDirect
Worm Phenotype (WP)early larval lethal0.0009369Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.0009885Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.01994Highly InformativeInherited
Worm Phenotype (WP)egg retention0.4168Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.0891Least InformativeInherited
Fly Phenotype (FP)visible0Moderately InformativeDirect
Fly Phenotype (FP)lethal0.2503Moderately InformativeInherited
Fly Phenotype (FP)lethal - all die before end of first instar larval stage0.0000000003245InformativeDirect
Fly Phenotype (FP)wild-type0.0005217InformativeDirect
Fly Phenotype (FP)lethal - all die before end of embryonic stage0.00000000001345Highly InformativeDirect
Fly Phenotype (FP)homeotic0.00000006004Highly InformativeDirect
Fly Phenotype (FP)some die during embryonic stage0.000007823Highly InformativeDirect
Fly Phenotype (FP)some die during P-stage0.343Highly InformativeInherited

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system subdivision0.0000000002065Least InformativeDirect
Fly Anatomy (FA)adult0.000000006092Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0.0005261Least InformativeDirect
Fly Anatomy (FA)larva0.02129Least InformativeInherited
Fly Anatomy (FA)nervous system0.337Least InformativeInherited
Fly Anatomy (FA)somatic cell0.3604Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)region of integument0.00000002621Moderately InformativeDirect
Fly Anatomy (FA)adult integumentary system0.0000001121Moderately InformativeDirect
Fly Anatomy (FA)appendage0.000008094Moderately InformativeDirect
Fly Anatomy (FA)multi-cell-component structure0.00003032Moderately InformativeDirect
Fly Anatomy (FA)acellular anatomical structure0.0001323Moderately InformativeDirect
Fly Anatomy (FA)thorax0.0008657Moderately InformativeDirect
Fly Anatomy (FA)adult segment0.001978Moderately InformativeInherited
Fly Anatomy (FA)ganglion0.003459Moderately InformativeInherited
Fly Anatomy (FA)neuron0.0644Moderately InformativeInherited
Fly Anatomy (FA)late embryo0.1282Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.1848Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.3356Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.419Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.4384Moderately InformativeInherited
Fly Anatomy (FA)sensory system0.5877Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.8276Moderately InformativeInherited
Fly Anatomy (FA)head0.9153Moderately InformativeInherited
Fly Anatomy (FA)larval abdomen0.0000000000345InformativeDirect
Fly Anatomy (FA)larval segment0.0000000003575InformativeDirect
Fly Anatomy (FA)interneuron0.000008968InformativeDirect
Fly Anatomy (FA)adult external head0.00001322InformativeDirect
Fly Anatomy (FA)syncytium0.0001923InformativeDirect
Fly Anatomy (FA)abdominal segment0.0002187InformativeDirect
Fly Anatomy (FA)mechanosensory system0.0003981InformativeDirect
Fly Anatomy (FA)extended germ band embryo0.0004539InformativeDirect
Fly Anatomy (FA)primordium0.00086InformativeDirect
Fly Anatomy (FA)adult procephalic segment0.000993InformativeDirect
Fly Anatomy (FA)eo-type sensillum0.001228InformativeInherited
Fly Anatomy (FA)muscle system0.00282InformativeInherited
Fly Anatomy (FA)presumptive embryonic/larval system0.004266InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.00842InformativeInherited
Fly Anatomy (FA)nerve0.01497InformativeInherited
Fly Anatomy (FA)embryonic/larval integumentary system0.0313InformativeInherited
Fly Anatomy (FA)neuromere0.03403InformativeInherited
Fly Anatomy (FA)cuticular specialization0.04216InformativeInherited
Fly Anatomy (FA)embryonic/larval circulatory system0.1134InformativeInherited
Fly Anatomy (FA)tract0.1786InformativeInherited
Fly Anatomy (FA)eye photoreceptor cell0.3721InformativeInherited
Fly Anatomy (FA)adult central nervous system0.4066InformativeInherited
Fly Anatomy (FA)brain0.4673InformativeInherited
Fly Anatomy (FA)embryonic/larval peripheral nervous system0.6684InformativeInherited
Fly Anatomy (FA)neuroblast0.8231InformativeInherited
Fly Anatomy (FA)synaptic neuropil domain0.9455InformativeInherited
Fly Anatomy (FA)labral segment1InformativeInherited
Fly Anatomy (FA)ventral nerve cord primordium0.000000008522Highly InformativeDirect
Fly Anatomy (FA)embryonic neuroblast0.000001705Highly InformativeDirect
Fly Anatomy (FA)commissure0.0000126Highly InformativeDirect
Fly Anatomy (FA)embryonic head0.00002918Highly InformativeDirect
Fly Anatomy (FA)mesothoracic tergum0.00005314Highly InformativeDirect
Fly Anatomy (FA)antennal lobe glomerulus VA1v0.00006421Highly InformativeDirect
Fly Anatomy (FA)segment of leg0.0001221Highly InformativeDirect
Fly Anatomy (FA)presumptive embryonic/larval central nervous system0.0001245Highly InformativeDirect
Fly Anatomy (FA)ventral nervous system0.0002108Highly InformativeDirect
Fly Anatomy (FA)head bristle0.0002749Highly InformativeDirect
Fly Anatomy (FA)adult metathoracic segment0.0003172Highly InformativeDirect
Fly Anatomy (FA)larval abdominal segment 20.0005637Highly InformativeDirect
Fly Anatomy (FA)embryonic/larval dorsal vessel0.0009005Highly InformativeDirect
Fly Anatomy (FA)maxillary palp sense organ0.0009183Highly InformativeDirect
Fly Anatomy (FA)subesophageal ganglion0.001245Highly InformativeInherited
Fly Anatomy (FA)denticle belt0.001694Highly InformativeInherited
Fly Anatomy (FA)neuroblast lineage clone0.002675Highly InformativeInherited
Fly Anatomy (FA)segment of antenna0.007001Highly InformativeInherited
Fly Anatomy (FA)germ layer derivative0.02525Highly InformativeInherited
Fly Anatomy (FA)antennal lobe projection neuron iPN0.1999Highly InformativeInherited
Fly Anatomy (FA)antennal lobe projection neuron adPN0.305Highly InformativeInherited
Fly Anatomy (FA)unilateral ACT relay interneuron0.3684Highly InformativeInherited
Fly Anatomy (FA)larval mesothoracic segment0.4848Highly InformativeInherited
Fly Anatomy (FA)late extended germ band embryo0.4946Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.02386Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.121Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.1417Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.1417Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.2092Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.7819Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.0001956InformativeDirect
Zebrafish Anatomy (ZA)embryonic structure0.1829InformativeInherited
Zebrafish Anatomy (ZA)digestive system0.2359InformativeInherited
Zebrafish Anatomy (ZA)pleuroperitoneal region0.9789InformativeInherited
Zebrafish Anatomy (ZA)endocrine system0.006344Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.0000000000004006Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.000005752Least InformativeDirect
Xenopus ANatomical entity (XAN)head0.2665Least InformativeInherited
Xenopus ANatomical entity (XAN)anatomical system1Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk1Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ1Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)embryonic structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.001221Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.003784Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.0781Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)forebrain0InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0InformativeDirect
Xenopus ANatomical entity (XAN)neural plate0InformativeDirect
Xenopus ANatomical entity (XAN)mesenchyme0InformativeDirect
Xenopus ANatomical entity (XAN)anatomical direction0InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space0InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0InformativeDirect
Xenopus ANatomical entity (XAN)eye0.000000000000001567InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode0.0000000000001077InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.000000000000671InformativeDirect
Xenopus ANatomical entity (XAN)endoderm0.000000000008411InformativeDirect
Xenopus ANatomical entity (XAN)cardiovascular system0.00000000006199InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system0.0000000004375InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.0000001328InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0000101InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.03492InformativeInherited
Xenopus ANatomical entity (XAN)skeletal system0.03573InformativeInherited
Xenopus ANatomical entity (XAN)tail0.703InformativeInherited
Xenopus ANatomical entity (XAN)urinary system0.751InformativeInherited
Xenopus ANatomical entity (XAN)intestine1InformativeInherited
Xenopus ANatomical entity (XAN)endocrine system1InformativeInherited
Xenopus ANatomical entity (XAN)limb1InformativeInherited
Xenopus ANatomical entity (XAN)solid compound organ1InformativeInherited
Xenopus ANatomical entity (XAN)midbrain0Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0Highly InformativeDirect
Xenopus ANatomical entity (XAN)chordal neural plate0Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranium0Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural tube0Highly InformativeDirect
Xenopus ANatomical entity (XAN)presumptive midbrain-hindbrain boundary0Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural fold0.000000000000003133Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial neural crest0.0000000000001856Highly InformativeDirect
Xenopus ANatomical entity (XAN)head mesenchyme0.0000000000004223Highly InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000000002822Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border0.000000000006612Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior placodal area0.000000000008663Highly InformativeDirect
Xenopus ANatomical entity (XAN)pronephric tubule0.00000000001962Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail tip0.00000000004615Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural ridge0.0000000002677Highly InformativeDirect
Xenopus ANatomical entity (XAN)foregut0.0000000003415Highly InformativeDirect
Xenopus ANatomical entity (XAN)anatomical line0.0000000007915Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic field0.000000005314Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindgut0.00000002946Highly InformativeDirect
Xenopus ANatomical entity (XAN)retinal inner nuclear layer0.00000009166Highly InformativeDirect
Xenopus ANatomical entity (XAN)intermediate mesoderm0.0000001388Highly InformativeDirect
Xenopus ANatomical entity (XAN)proliferative region0.0000001626Highly InformativeDirect
Xenopus ANatomical entity (XAN)primordium0.0000002954Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindlimb0.0000003046Highly InformativeDirect
Xenopus ANatomical entity (XAN)ventricular zone0.0000003644Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted dorsal mesoderm0.0000009851Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural nucleus0.000002907Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastema0.000003137Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial nerve0.000003213Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail bud0.0000212Highly InformativeDirect
Xenopus ANatomical entity (XAN)notochord0.00003384Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural groove0.00003384Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system0.00003538Highly InformativeDirect
Xenopus ANatomical entity (XAN)ganglion0.0001006Highly InformativeDirect
Xenopus ANatomical entity (XAN)presomitic mesoderm0.0001247Highly InformativeDirect
Xenopus ANatomical entity (XAN)retinal ganglion cell layer0.0002712Highly InformativeDirect
Xenopus ANatomical entity (XAN)somite0.0005982Highly InformativeDirect
Xenopus ANatomical entity (XAN)intersomitic region0.000868Highly InformativeDirect
Xenopus ANatomical entity (XAN)archenteron0.0399Highly InformativeInherited
Xenopus ANatomical entity (XAN)olfactory system0.06223Highly InformativeInherited
Xenopus ANatomical entity (XAN)marginal zone1Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage1Least InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.0000000000236Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)climax stage1Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)late tailbud stage0.0997InformativeInherited
Xenopus DEvelopment stage (XDE)adult frog stage0.000001612Highly InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 100.000004901Highly InformativeDirect
Xenopus DEvelopment stage (XDE)premetamorphosis stage0.0002809Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0.6371Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.8211Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.8878Least InformativeInherited
Plant ANatomical entity (PAN)whole plant1Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue1Least InformativeInherited
Plant ANatomical entity (PAN)megasporophyll1Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll1Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure1Least InformativeInherited
Plant ANatomical entity (PAN)root system1Least InformativeInherited
Plant ANatomical entity (PAN)leaf1Least InformativeInherited
Plant ANatomical entity (PAN)sporangium1Least InformativeInherited
Plant ANatomical entity (PAN)root tip0.000000003833InformativeDirect
Plant ANatomical entity (PAN)portion of vascular tissue0.000000004857InformativeDirect
Plant ANatomical entity (PAN)primordium0.0000000417InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.00000009866InformativeDirect
Plant ANatomical entity (PAN)fruit0.0005262InformativeDirect
Plant ANatomical entity (PAN)root epidermis0.046InformativeInherited
Plant ANatomical entity (PAN)shoot apical meristem0.00000000000009716Highly InformativeDirect
Plant ANatomical entity (PAN)reproductive shoot apex0.0000000001167Highly InformativeDirect
Plant ANatomical entity (PAN)primary root0.000000005827Highly InformativeDirect
Plant ANatomical entity (PAN)vegetative shoot apex0.000000008143Highly InformativeDirect
Plant ANatomical entity (PAN)plant ovule0.00000003744Highly InformativeDirect
Plant ANatomical entity (PAN)phyllome primordium0.00000009138Highly InformativeDirect
Plant ANatomical entity (PAN)trichome0.000001882Highly InformativeDirect
Plant ANatomical entity (PAN)plant axis elongation zone0.000008875Highly InformativeDirect
Plant ANatomical entity (PAN)anther0.00001195Highly InformativeDirect
Plant ANatomical entity (PAN)juvenile vascular leaf0.00002125Highly InformativeDirect
Plant ANatomical entity (PAN)phyllome vascular system0.00006884Highly InformativeDirect
Plant ANatomical entity (PAN)style0.0001112Highly InformativeDirect
Plant ANatomical entity (PAN)root stele0.0002813Highly InformativeDirect
Plant ANatomical entity (PAN)lateral root0.0003888Highly InformativeDirect
Plant ANatomical entity (PAN)root meristem0.006502Highly InformativeInherited
Plant structure DEvelopment stage (PDE)seedling development stage0.0005921InformativeDirect

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 groups0.8193Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00000109Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.01775Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.5454Moderately InformativeInherited

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR009057 SSF46689 Protein matches
Abstract

Homeodomain proteins are transcription factors that share a related DNA binding homeodomain [PubMed10377888]. The homeodomain was first identified in a number of Drosophila homeotic and segmentation proteins, but is now known to be well conserved in many other animals, including vertebrates. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA. The first helix helps to stabilise the structure. Many proteins contain homeodomains, including Drosophila Engrailed, yeast mating type proteins, hepatocyte nuclear factor 1a and HOX proteins.

The homeodomain motif is very similar in sequence and structure to domains in a wide range of DNA-binding proteins, including recombinases, Myb proteins, GARP response regulators, human telomeric proteins (hTRF1), paired domain proteins (PAX), yeast RAP1, centromere-binding proteins CENP-B and ABP-1, transcriptional regulators (TyrR), AraC-type transcriptional activators, and tetracycline repressor-like proteins (TetR, QacR, YcdC) [PubMed12215502, PubMed9739097, PubMed7707374].


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 187 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 Homeodomain-like domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 187 hidden Markov models representing the Homeodomain-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · 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 ]