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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 inheritance0.00001146Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0.03115Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.1196Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.168Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.4998Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.7159Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.9541Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal skull morphology0.1239Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.1808Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.2531Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.3732Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.3951Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.5643Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal anterior eye segment morphology0.6218Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.8192Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.9059Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.9798Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal posterior eye segment morphology0.9935Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal lip morphology0.007InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thyroid gland0.01681InformativeInherited
Phenotypic Abnormality (PA)Abnormal palate morphology0.03393InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral white matter0.03993InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the calvaria0.1288InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.155InformativeInherited
Phenotypic Abnormality (PA)Short stature0.2108InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the pancreas0.2146InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the nose0.6436InformativeInherited
Phenotypic Abnormality (PA)Abnormal cornea morphology0.7364InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the anterior pituitary0.7796InformativeInherited
Phenotypic Abnormality (PA)Cleft upper lip0.00008394Highly InformativeDirect
Phenotypic Abnormality (PA)Abdominal distention0.0006274Highly InformativeDirect
Phenotypic Abnormality (PA)Agenesis of corpus callosum0.0006894Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of circulating adrenocorticotropin level0.007478Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal pancreas morphology0.01082Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal nasal morphology0.03024Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal ureter physiology0.07138Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cervical spine0.2129Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cheek0.3377Highly InformativeInherited
Phenotypic Abnormality (PA)Cleft palate0.6584Highly InformativeInherited
Phenotypic Abnormality (PA)Reduced bone mineral density0.8722Highly InformativeInherited
Phenotypic Abnormality (PA)Anterior hypopituitarism0.8825Highly 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 phenotype0.0000000000008789Least InformativeDirect
Mammalian Phenotype (MP)growth/size/body region phenotype0.00000002899Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0.0000000619Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.005499Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.3616Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.734Least 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 weaning0.0000000000005698Moderately InformativeDirect
Mammalian Phenotype (MP)embryo phenotype0.000000000005832Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.0000000003715Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.0000003134Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.000003861Moderately InformativeDirect
Mammalian Phenotype (MP)respiratory system phenotype0.00001268Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal digestive system morphology0.0007253Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal muscle morphology0.006678Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.01296Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.01744Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.04678Moderately 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 morphology0.3057Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.335Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.4498Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.6955Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.8139Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.9535Moderately 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 lethality0.0000000004821InformativeDirect
Mammalian Phenotype (MP)abnormal head morphology0.0000005384InformativeDirect
Mammalian Phenotype (MP)normal phenotype0.000007706InformativeDirect
Mammalian Phenotype (MP)abnormal cell differentiation0.00006106InformativeDirect
Mammalian Phenotype (MP)abnormal gas homeostasis0.00006752InformativeDirect
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.0001006InformativeDirect
Mammalian Phenotype (MP)abnormal spinal cord morphology0.0002944InformativeDirect
Mammalian Phenotype (MP)abnormal eye development0.001035InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.00129InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.002026InformativeInherited
Mammalian Phenotype (MP)abnormal vertebrae morphology0.002409InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.002954InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.002992InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.01842InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.03243InformativeInherited
Mammalian Phenotype (MP)abnormal hypaxial muscle morphology0.06245InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.06665InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.09499InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology0.1203InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.1306InformativeInherited
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 morphology0.6039InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.6485InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.6803InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.7615InformativeInherited
Mammalian Phenotype (MP)abnormal limb morphology0.8222InformativeInherited
Mammalian Phenotype (MP)abnormal limbic system morphology0.8394InformativeInherited
Mammalian Phenotype (MP)abnormal cerebral hemisphere morphology0.8531InformativeInherited
Mammalian Phenotype (MP)abnormal spleen morphology0.9628InformativeInherited
Mammalian Phenotype (MP)abnormal cerebellum morphology1InformativeInherited
Mammalian Phenotype (MP)cyanosis0.000000002984Highly InformativeDirect
Mammalian Phenotype (MP)abnormal middle ear morphology0.000000003813Highly InformativeDirect
Mammalian Phenotype (MP)abnormal joint morphology0.00000009917Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.000000683Highly InformativeDirect
Mammalian Phenotype (MP)abnormal brain ventricle morphology0.000001391Highly InformativeDirect
Mammalian Phenotype (MP)distended abdomen0.000001586Highly InformativeDirect
Mammalian Phenotype (MP)abnormal forelimb morphology0.000005188Highly InformativeDirect
Mammalian Phenotype (MP)abnormal secondary palate development0.000005628Highly InformativeDirect
Mammalian Phenotype (MP)postnatal lethality0.00001521Highly InformativeDirect
Mammalian Phenotype (MP)abnormal neurocranium morphology0.00002117Highly InformativeDirect
Mammalian Phenotype (MP)abnormal vas deferens morphology0.00003936Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circumventricular organ morphology0.00005702Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mandibular coronoid process morphology0.0001869Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nose morphology0.0003131Highly InformativeDirect
Mammalian Phenotype (MP)abnormal telencephalon development0.0003453Highly InformativeDirect
Mammalian Phenotype (MP)abnormal kidney development0.0004388Highly InformativeDirect
Mammalian Phenotype (MP)abnormal right subclavian artery morphology0.0006167Highly InformativeDirect
Mammalian Phenotype (MP)impaired branching involved in ureteric bud morphogenesis0.0006466Highly InformativeDirect
Mammalian Phenotype (MP)abnormal basicranium morphology0.0007975Highly InformativeDirect
Mammalian Phenotype (MP)abnormal tongue morphology0.001189Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aortic arch morphology0.001555Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary gland morphology0.007711Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.01157Highly InformativeInherited
Mammalian Phenotype (MP)abnormal optic nerve morphology0.01398Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sternum morphology0.01559Highly InformativeInherited
Mammalian Phenotype (MP)abnormal limb long bone morphology0.02088Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.02597Highly InformativeInherited
Mammalian Phenotype (MP)abnormal rib morphology0.02945Highly 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 morphology0.2907Highly 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 variant0.00000002917Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0000002466Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000002543Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.02346Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.2351Least InformativeInherited
Worm Phenotype (WP)larval lethal0.2535Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.7694Least InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.0000000001588Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.0000000001788Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.0000001685Moderately InformativeDirect
Worm Phenotype (WP)nervous system morphology variant0.000004062Moderately InformativeDirect
Worm Phenotype (WP)neuron development variant0.0001373Moderately InformativeDirect
Worm Phenotype (WP)drug response variant0.2274Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6602Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.7997Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9921Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant1Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant1Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant1Moderately InformativeInherited
Worm Phenotype (WP)male morphology variant0.00000000008626InformativeDirect
Worm Phenotype (WP)cell fate specification variant0.0000001941InformativeDirect
Worm Phenotype (WP)tail morphology variant0.00003712InformativeDirect
Worm Phenotype (WP)anesthetic response variant0.001609InformativeInherited
Worm Phenotype (WP)directionality variant0.0589InformativeInherited
Worm Phenotype (WP)forward locomotion variant0.06947InformativeInherited
Worm Phenotype (WP)vulva development variant0.09072InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.1374InformativeInherited
Worm Phenotype (WP)body posture variant0.1898InformativeInherited
Worm Phenotype (WP)egg laying variant0.1947InformativeInherited
Worm Phenotype (WP)locomotion reduced0.5314InformativeInherited
Worm Phenotype (WP)chemical resistant0.9921InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)cell number increased1InformativeInherited
Worm Phenotype (WP)ectopic expression transgene0.00000002162Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.00001582Highly InformativeDirect
Worm Phenotype (WP)cell number decreased0.00002269Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.00006622Highly InformativeDirect
Worm Phenotype (WP)growth rate variant0.0001676Highly InformativeDirect
Worm Phenotype (WP)male nervous system development variant0.0001978Highly InformativeDirect
Worm Phenotype (WP)cell fusion variant0.0002446Highly InformativeDirect
Worm Phenotype (WP)early larval lethal0.0002563Highly InformativeDirect
Worm Phenotype (WP)male tail development variant0.0003311Highly InformativeDirect
Worm Phenotype (WP)vulvaless0.0003559Highly InformativeDirect
Worm Phenotype (WP)multiple anchor cells0.0003752Highly InformativeDirect
Worm Phenotype (WP)coiling frequency variant0.0004577Highly InformativeDirect
Worm Phenotype (WP)body axis morphology variant0.0004826Highly InformativeDirect
Worm Phenotype (WP)neuronal cell fate specification variant0.0006657Highly InformativeDirect
Worm Phenotype (WP)imipramine resistant0.0007364Highly InformativeDirect
Worm Phenotype (WP)protein degradation variant0.0009221Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.01776Highly InformativeInherited
Worm Phenotype (WP)postembryonic cell lineage variant0.09954Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.07349Least InformativeInherited
Fly Phenotype (FP)lethal0.246Moderately InformativeInherited
Fly Phenotype (FP)visible0InformativeDirect
Fly Phenotype (FP)lethal - all die before end of larval stage0.0000007584InformativeDirect
Fly Phenotype (FP)wild-type0.000593InformativeDirect
Fly Phenotype (FP)lethal - all die before end of embryonic stage0.0000000000216Highly InformativeDirect
Fly Phenotype (FP)homeotic0.00000006549Highly InformativeDirect
Fly Phenotype (FP)some die during embryonic stage0.00001382Highly InformativeDirect
Fly Phenotype (FP)some die during P-stage0.3923Highly InformativeInherited

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organism subdivision0.000000000000007457Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0.00000000005771Least InformativeDirect
Fly Anatomy (FA)adult0.000000001357Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0.00004793Least InformativeDirect
Fly Anatomy (FA)cell0.07551Least InformativeInherited
Fly Anatomy (FA)larva0.1393Least InformativeInherited
Fly Anatomy (FA)nervous system0.1478Least InformativeInherited
Fly Anatomy (FA)adult integumentary system0.00000001058Moderately InformativeDirect
Fly Anatomy (FA)region of integument0.00000001346Moderately InformativeDirect
Fly Anatomy (FA)appendage0.00000006411Moderately InformativeDirect
Fly Anatomy (FA)multi-cell-component structure0.00000687Moderately InformativeDirect
Fly Anatomy (FA)adult segment0.00001247Moderately InformativeDirect
Fly Anatomy (FA)acellular anatomical structure0.0001127Moderately InformativeDirect
Fly Anatomy (FA)thorax0.000318Moderately InformativeDirect
Fly Anatomy (FA)ganglion0.0005828Moderately InformativeDirect
Fly Anatomy (FA)adult tagma0.006483Moderately InformativeInherited
Fly Anatomy (FA)embryo0.01031Moderately InformativeInherited
Fly Anatomy (FA)portion of tissue0.04738Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.07512Moderately InformativeInherited
Fly Anatomy (FA)neuron0.08325Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.3695Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.3776Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.8749Moderately InformativeInherited
Fly Anatomy (FA)sensory system0.8914Moderately InformativeInherited
Fly Anatomy (FA)head0.934Moderately InformativeInherited
Fly Anatomy (FA)larval segment0.0000000000004318InformativeDirect
Fly Anatomy (FA)interneuron0.00000194InformativeDirect
Fly Anatomy (FA)larval abdomen0.0000243InformativeDirect
Fly Anatomy (FA)abdominal segment0.0001497InformativeDirect
Fly Anatomy (FA)mechanosensory system0.0004042InformativeDirect
Fly Anatomy (FA)head capsule0.000937InformativeDirect
Fly Anatomy (FA)syncytium0.00097InformativeDirect
Fly Anatomy (FA)extended germ band embryo0.0009741InformativeDirect
Fly Anatomy (FA)primordium0.001223InformativeInherited
Fly Anatomy (FA)muscle system0.004534InformativeInherited
Fly Anatomy (FA)embryonic/larval integumentary system0.011InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.01508InformativeInherited
Fly Anatomy (FA)nerve0.01802InformativeInherited
Fly Anatomy (FA)neuromere0.02132InformativeInherited
Fly Anatomy (FA)ventral nerve cord0.02302InformativeInherited
Fly Anatomy (FA)cuticular specialization0.03917InformativeInherited
Fly Anatomy (FA)leg0.05777InformativeInherited
Fly Anatomy (FA)embryonic/larval circulatory system0.07085InformativeInherited
Fly Anatomy (FA)tract0.09934InformativeInherited
Fly Anatomy (FA)adult head sensillum0.1583InformativeInherited
Fly Anatomy (FA)adult central nervous system0.1845InformativeInherited
Fly Anatomy (FA)sensory organ cell0.3466InformativeInherited
Fly Anatomy (FA)rhabdomeric photoreceptor cell0.3488InformativeInherited
Fly Anatomy (FA)wing0.3784InformativeInherited
Fly Anatomy (FA)adult optic lobe neuron0.4142InformativeInherited
Fly Anatomy (FA)brain0.4291InformativeInherited
Fly Anatomy (FA)histaminergic neuron0.5617InformativeInherited
Fly Anatomy (FA)retina0.6453InformativeInherited
Fly Anatomy (FA)embryonic/larval peripheral nervous system0.7283InformativeInherited
Fly Anatomy (FA)adult procephalic segment0.743InformativeInherited
Fly Anatomy (FA)chaeta0.7646InformativeInherited
Fly Anatomy (FA)neuroblast0.7794InformativeInherited
Fly Anatomy (FA)presumptive embryonic/larval system0.7857InformativeInherited
Fly Anatomy (FA)synaptic neuropil domain0.9263InformativeInherited
Fly Anatomy (FA)labral segment1InformativeInherited
Fly Anatomy (FA)ventral nerve cord primordium0.000000006567Highly InformativeDirect
Fly Anatomy (FA)larval neuromere0.00001142Highly InformativeDirect
Fly Anatomy (FA)embryonic neuroblast0.00001544Highly InformativeDirect
Fly Anatomy (FA)commissure0.0000175Highly InformativeDirect
Fly Anatomy (FA)denticle belt0.00001766Highly InformativeDirect
Fly Anatomy (FA)mesothoracic tergum0.0000559Highly InformativeDirect
Fly Anatomy (FA)antennal lobe glomerulus VA1v0.00006183Highly InformativeDirect
Fly Anatomy (FA)ventral nervous system0.0002152Highly InformativeDirect
Fly Anatomy (FA)antenna0.0002613Highly InformativeDirect
Fly Anatomy (FA)head bristle0.0002939Highly InformativeDirect
Fly Anatomy (FA)adult metathoracic segment0.0003694Highly InformativeDirect
Fly Anatomy (FA)embryonic head0.0004805Highly InformativeDirect
Fly Anatomy (FA)EL neuron0.0007019Highly InformativeDirect
Fly Anatomy (FA)embryonic/larval dorsal vessel0.0008278Highly InformativeDirect
Fly Anatomy (FA)embryonic thorax0.001082Highly InformativeInherited
Fly Anatomy (FA)subesophageal ganglion0.001691Highly InformativeInherited
Fly Anatomy (FA)germ layer derivative0.02194Highly InformativeInherited
Fly Anatomy (FA)late extended germ band embryo0.5143Highly InformativeInherited
Fly Anatomy (FA)A1-7 acute muscle0.5259Highly InformativeInherited
Fly Anatomy (FA)larval mesothoracic segment0.5698Highly 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 structure0.00738Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.08125Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.1741Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.9285Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.2092Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.716Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.0004304InformativeDirect
Zebrafish Anatomy (ZA)embryonic structure0.1943InformativeInherited
Zebrafish Anatomy (ZA)digestive system0.2415InformativeInherited
Zebrafish Anatomy (ZA)musculature system0.6396InformativeInherited
Zebrafish Anatomy (ZA)pleuroperitoneal region0.9447InformativeInherited
Zebrafish Anatomy (ZA)endocrine system0.008475Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.000000000001085Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.00001125Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0.00054Least InformativeDirect
Xenopus ANatomical entity (XAN)head0.2582Least InformativeInherited
Xenopus ANatomical entity (XAN)urogenital 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 system0.001505Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.003442Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.0895Moderately 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)eye0.00000000000003305InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode0.0000000000000814InformativeDirect
Xenopus ANatomical entity (XAN)neural crest0.000000000001346InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.000000000002036InformativeDirect
Xenopus ANatomical entity (XAN)endoderm0.00000000003475InformativeDirect
Xenopus ANatomical entity (XAN)cardiovascular system0.0000000001371InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system0.0000000005767InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.0000002732InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0000175InformativeDirect
Xenopus ANatomical entity (XAN)notochord0.00003157InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.02253InformativeInherited
Xenopus ANatomical entity (XAN)skeletal system0.03871InformativeInherited
Xenopus ANatomical entity (XAN)tail0.7506InformativeInherited
Xenopus ANatomical entity (XAN)urinary system0.7719InformativeInherited
Xenopus ANatomical entity (XAN)intestine1InformativeInherited
Xenopus ANatomical entity (XAN)endocrine system1InformativeInherited
Xenopus ANatomical entity (XAN)connective tissue1InformativeInherited
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 fold0.000000000000003079Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial neural crest0.0000000000001611Highly InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000000002694Highly InformativeDirect
Xenopus ANatomical entity (XAN)head mesenchyme0.000000000005533Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border0.000000000006619Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior placodal area0.000000000008417Highly InformativeDirect
Xenopus ANatomical entity (XAN)pronephric tubule0.00000000003402Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail tip0.0000000002283Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural ridge0.000000000276Highly InformativeDirect
Xenopus ANatomical entity (XAN)foregut0.000000002094Highly InformativeDirect
Xenopus ANatomical entity (XAN)anatomical line0.000000002932Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic field0.000000005004Highly InformativeDirect
Xenopus ANatomical entity (XAN)limb bud0.00000001331Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindgut0.0000001293Highly InformativeDirect
Xenopus ANatomical entity (XAN)intermediate mesoderm0.0000002163Highly InformativeDirect
Xenopus ANatomical entity (XAN)primordium0.0000002242Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural nucleus0.0000003185Highly InformativeDirect
Xenopus ANatomical entity (XAN)ventricular zone0.0000003482Highly InformativeDirect
Xenopus ANatomical entity (XAN)proliferative region0.0000004774Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted dorsal mesoderm0.0000008597Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastema0.000003695Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail bud0.00002367Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural groove0.00003047Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system0.00005631Highly InformativeDirect
Xenopus ANatomical entity (XAN)presomitic mesoderm0.0001197Highly InformativeDirect
Xenopus ANatomical entity (XAN)ganglion0.0001333Highly InformativeDirect
Xenopus ANatomical entity (XAN)otic placode0.0005714Highly InformativeDirect
Xenopus ANatomical entity (XAN)archenteron0.04085Highly InformativeInherited
Xenopus ANatomical entity (XAN)olfactory system0.04652Highly InformativeInherited
Xenopus ANatomical entity (XAN)retinal neural layer0.4079Highly InformativeInherited
Xenopus ANatomical entity (XAN)pelvic appendage0.7675Highly InformativeInherited
Xenopus ANatomical entity (XAN)marginal zone1Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage1Least InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.00000000002281Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)climax stage1Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)late tailbud stage0.1054InformativeInherited
Xenopus DEvelopment stage (XDE)adult frog stage0.000002602Highly InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 100.000005342Highly InformativeDirect
Xenopus DEvelopment stage (XDE)premetamorphosis stage0.0002589Highly 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 groups0.7071Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00001413Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.01917Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.5774Moderately InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationDNA-binding0Moderately InformativeDirect

Document: KW 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) · 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 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) · UniProtKB KeyWords (KW) · Internal database links ]