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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 disease0.6973Moderately 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 inheritance0.000002485Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0.01944Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.04068Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.04249Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.2999Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.5214Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.9452Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skull0.08051Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.127Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.4081Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.4245Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the nose0.5184Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal anterior segment morphology0.5766Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.6728Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.7894Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.8642Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.8792Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system0.9895Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the pituitary gland0.001744InformativeInherited
Phenotypic Abnormality (PA)Abnormal lip morphology0.01429InformativeInherited
Phenotypic Abnormality (PA)Short stature0.0313InformativeInherited
Phenotypic Abnormality (PA)Abnormal palate morphology0.06981InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.1648InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the calvaria0.1742InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the cerebrum0.2985InformativeInherited
Phenotypic Abnormality (PA)Abnormality of circulating hormone level0.42InformativeInherited
Phenotypic Abnormality (PA)Abdominal symptom0.5301InformativeInherited
Phenotypic Abnormality (PA)Abnormal cornea morphology0.8164InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal morphology0.8348InformativeInherited
Phenotypic Abnormality (PA)Abnormal ear morphology0.8431InformativeInherited
Phenotypic Abnormality (PA)Abnormal bone structure0.9427InformativeInherited
Phenotypic Abnormality (PA)Abdominal distention0.00008166Highly InformativeDirect
Phenotypic Abnormality (PA)Cleft upper lip0.0001558Highly InformativeDirect
Phenotypic Abnormality (PA)Agenesis of corpus callosum0.0009249Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of circulating adrenocorticotropin level0.001405Highly InformativeInherited
Phenotypic Abnormality (PA)Midline defect of the nose0.01525Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal anterior chamber morphology0.05233Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cheek0.2849Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the middle ear0.3549Highly InformativeInherited
Phenotypic Abnormality (PA)Cleft palate0.4179Highly InformativeInherited
Phenotypic Abnormality (PA)Reduced bone mineral density0.8309Highly 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 phenotype0.0000000000005343Least InformativeDirect
Mammalian Phenotype (MP)growth/size/body region phenotype0.00000004235Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0.00000008083Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.004833Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.3511Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7206Least 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 weaning0.0000000000008687Moderately InformativeDirect
Mammalian Phenotype (MP)embryo phenotype0.000000000004267Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.0000000002958Moderately InformativeDirect
Mammalian Phenotype (MP)limbs/digits/tail phenotype0.000000001274Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.000000265Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.000003583Moderately InformativeDirect
Mammalian Phenotype (MP)respiratory system phenotype0.000011Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal digestive system morphology0.0007241Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal muscle morphology0.006623Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.01346Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.01778Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.04323Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.0483Moderately InformativeInherited
Mammalian Phenotype (MP)reproductive system phenotype0.05196Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.1888Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.2996Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.339Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.4431Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.7029Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.8064Moderately 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 lethality0.0000000003225InformativeDirect
Mammalian Phenotype (MP)abnormal head morphology0.000000402InformativeDirect
Mammalian Phenotype (MP)normal phenotype0.00000672InformativeDirect
Mammalian Phenotype (MP)abnormal cell differentiation0.00006031InformativeDirect
Mammalian Phenotype (MP)abnormal gas homeostasis0.00006281InformativeDirect
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.0001057InformativeDirect
Mammalian Phenotype (MP)abnormal spinal cord morphology0.0002992InformativeDirect
Mammalian Phenotype (MP)abnormal eye development0.001038InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.001091InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.002028InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.002371InformativeInherited
Mammalian Phenotype (MP)abnormal vertebrae morphology0.00289InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.002963InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.02428InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.03242InformativeInherited
Mammalian Phenotype (MP)abnormal hypaxial muscle morphology0.06347InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.06393InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.09494InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology0.1172InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.1305InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.162InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2028InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.2345InformativeInherited
Mammalian Phenotype (MP)abnormal sex determination0.2775InformativeInherited
Mammalian Phenotype (MP)abnormal pancreas morphology0.3482InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive gland morphology0.5328InformativeInherited
Mammalian Phenotype (MP)abnormal viscerocranium morphology0.5363InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.6511InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.6804InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.7614InformativeInherited
Mammalian Phenotype (MP)abnormal limb morphology0.8222InformativeInherited
Mammalian Phenotype (MP)abnormal limbic system morphology0.8395InformativeInherited
Mammalian Phenotype (MP)abnormal cerebral hemisphere morphology0.8531InformativeInherited
Mammalian Phenotype (MP)abnormal spleen morphology0.9613InformativeInherited
Mammalian Phenotype (MP)abnormal metencephalon morphology0.9766InformativeInherited
Mammalian Phenotype (MP)cyanosis0.000000002725Highly InformativeDirect
Mammalian Phenotype (MP)abnormal middle ear morphology0.000000004076Highly InformativeDirect
Mammalian Phenotype (MP)abnormal joint morphology0.0000002159Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.0000006405Highly InformativeDirect
Mammalian Phenotype (MP)abnormal brain ventricle morphology0.000001291Highly InformativeDirect
Mammalian Phenotype (MP)distended abdomen0.00000144Highly InformativeDirect
Mammalian Phenotype (MP)abnormal forelimb morphology0.000005171Highly InformativeDirect
Mammalian Phenotype (MP)abnormal secondary palate development0.000005405Highly InformativeDirect
Mammalian Phenotype (MP)postnatal lethality0.00002343Highly InformativeDirect
Mammalian Phenotype (MP)abnormal neurocranium morphology0.00003574Highly InformativeDirect
Mammalian Phenotype (MP)abnormal vas deferens morphology0.00003897Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circumventricular organ morphology0.00005664Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mandibular coronoid process morphology0.0001828Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nose morphology0.0003124Highly InformativeDirect
Mammalian Phenotype (MP)abnormal telencephalon development0.0003448Highly InformativeDirect
Mammalian Phenotype (MP)abnormal kidney development0.0004245Highly InformativeDirect
Mammalian Phenotype (MP)abnormal right subclavian artery morphology0.0006026Highly InformativeDirect
Mammalian Phenotype (MP)impaired branching involved in ureteric bud morphogenesis0.0006342Highly InformativeDirect
Mammalian Phenotype (MP)abnormal tongue morphology0.001191Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aortic arch morphology0.001518Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary gland morphology0.007707Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sternum morphology0.01072Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.0115Highly InformativeInherited
Mammalian Phenotype (MP)abnormal optic nerve morphology0.01396Highly InformativeInherited
Mammalian Phenotype (MP)abnormal limb long bone morphology0.02086Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.02658Highly InformativeInherited
Mammalian Phenotype (MP)abnormal rib morphology0.03426Highly 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 morphology0.2767Highly InformativeInherited
Mammalian Phenotype (MP)abnormal mesonephros morphology0.2914Highly InformativeInherited
Mammalian Phenotype (MP)abnormal food intake0.4945Highly InformativeInherited
Mammalian Phenotype (MP)abnormal epididymis morphology0.614Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pancreatic islet morphology0.9793Highly 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 variant0.00000003587Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0000002158Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000002195Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.06178Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.09316Least InformativeInherited
Worm Phenotype (WP)larval lethal0.3616Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.7711Least InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.000000001057Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.000000008424Moderately InformativeDirect
Worm Phenotype (WP)nervous system morphology variant0.000007649Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.6059Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.7938Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.7959Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.8277Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.8515Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9237Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant1Moderately InformativeInherited
Worm Phenotype (WP)male morphology variant0.00000000006355InformativeDirect
Worm Phenotype (WP)tail morphology variant0.00004655InformativeDirect
Worm Phenotype (WP)growth rate variant0.0001145InformativeDirect
Worm Phenotype (WP)protein degradation variant0.0006398InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.05157InformativeInherited
Worm Phenotype (WP)locomotor coordination variant0.05458InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.1554InformativeInherited
Worm Phenotype (WP)body posture variant0.2089InformativeInherited
Worm Phenotype (WP)vulva development variant0.2346InformativeInherited
Worm Phenotype (WP)egg laying variant0.3186InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.4232InformativeInherited
Worm Phenotype (WP)locomotion reduced0.6188InformativeInherited
Worm Phenotype (WP)drug resistant0.6804InformativeInherited
Worm Phenotype (WP)VPC competence variant1InformativeInherited
Worm Phenotype (WP)cell number increased1InformativeInherited
Worm Phenotype (WP)lineage variant0.00000005631Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.0000000656Highly InformativeDirect
Worm Phenotype (WP)body axis morphology variant0.0000007294Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.0000144Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.00005148Highly InformativeDirect
Worm Phenotype (WP)cell number decreased0.00005493Highly InformativeDirect
Worm Phenotype (WP)neuronal cell fate specification variant0.0001559Highly InformativeDirect
Worm Phenotype (WP)male tail development variant0.0003122Highly InformativeDirect
Worm Phenotype (WP)vulvaless0.0003326Highly InformativeDirect
Worm Phenotype (WP)coiling frequency0.0003794Highly InformativeDirect
Worm Phenotype (WP)multiple anchor cells0.0004404Highly InformativeDirect
Worm Phenotype (WP)male nervous system development variant0.0006352Highly InformativeDirect
Worm Phenotype (WP)early larval lethal0.0008589Highly InformativeDirect
Worm Phenotype (WP)cell fusion variant0.0009152Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.0009758Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.01988Highly InformativeInherited
Worm Phenotype (WP)egg retention0.4112Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.06753Least InformativeInherited
Fly Phenotype (FP)lethal - all die before end of P-stage0.03377Moderately InformativeInherited
Fly Phenotype (FP)visible0InformativeDirect
Fly Phenotype (FP)lethal - all die before end of first instar larval stage0.000000000274InformativeDirect
Fly Phenotype (FP)wild-type0.0005971InformativeDirect
Fly Phenotype (FP)lethal - all die before end of embryonic stage0.00000000001405Highly InformativeDirect
Fly Phenotype (FP)homeotic0.00000006399Highly InformativeDirect
Fly Phenotype (FP)some die during embryonic stage0.0000104Highly InformativeDirect
Fly Phenotype (FP)some die during P-stage0.3471Highly 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 subdivision0.00000000002918Least InformativeDirect
Fly Anatomy (FA)adult0.0000000008874Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0.0005952Least InformativeDirect
Fly Anatomy (FA)anatomical group0.001199Least InformativeInherited
Fly Anatomy (FA)larva0.01333Least InformativeInherited
Fly Anatomy (FA)nervous system0.3187Least InformativeInherited
Fly Anatomy (FA)somatic cell0.348Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)adult integumentary system0.0000003625Moderately InformativeDirect
Fly Anatomy (FA)developing embryonic structure0.000001562Moderately InformativeDirect
Fly Anatomy (FA)appendage0.0000136Moderately InformativeDirect
Fly Anatomy (FA)multi-cell-component structure0.00002289Moderately InformativeDirect
Fly Anatomy (FA)adult thorax0.0001229Moderately InformativeDirect
Fly Anatomy (FA)acellular anatomical structure0.0001468Moderately InformativeDirect
Fly Anatomy (FA)cell cluster organ0.0002804Moderately InformativeDirect
Fly Anatomy (FA)sense organ0.001164Moderately InformativeInherited
Fly Anatomy (FA)ganglion0.001569Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.001901Moderately InformativeInherited
Fly Anatomy (FA)neuron0.04935Moderately InformativeInherited
Fly Anatomy (FA)tagmatic subdivision of integument0.08421Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.1852Moderately InformativeInherited
Fly Anatomy (FA)late embryo0.2633Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.3357Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.3569Moderately InformativeInherited
Fly Anatomy (FA)thoracic segment0.358Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.4881Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.8125Moderately InformativeInherited
Fly Anatomy (FA)head0.9075Moderately InformativeInherited
Fly Anatomy (FA)larval abdomen0.0000000002733InformativeDirect
Fly Anatomy (FA)larval segment0.0000000004542InformativeDirect
Fly Anatomy (FA)interneuron0.000009432InformativeDirect
Fly Anatomy (FA)adult external head0.00001308InformativeDirect
Fly Anatomy (FA)syncytium0.0001761InformativeDirect
Fly Anatomy (FA)gland0.0002335InformativeDirect
Fly Anatomy (FA)abdominal segment0.0003138InformativeDirect
Fly Anatomy (FA)mechanosensory system0.0004944InformativeDirect
Fly Anatomy (FA)adult procephalic segment0.001052InformativeInherited
Fly Anatomy (FA)primordium0.001069InformativeInherited
Fly Anatomy (FA)extended germ band embryo0.001501InformativeInherited
Fly Anatomy (FA)muscle system0.002764InformativeInherited
Fly Anatomy (FA)synaptic neuropil0.01049InformativeInherited
Fly Anatomy (FA)presumptive embryonic/larval system0.01091InformativeInherited
Fly Anatomy (FA)nerve0.01164InformativeInherited
Fly Anatomy (FA)chemosensory system0.01764InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.0194InformativeInherited
Fly Anatomy (FA)neuromere0.02367InformativeInherited
Fly Anatomy (FA)cuticular specialization0.03855InformativeInherited
Fly Anatomy (FA)embryonic/larval integumentary system0.05217InformativeInherited
Fly Anatomy (FA)leg0.06272InformativeInherited
Fly Anatomy (FA)supraesophageal ganglion0.1649InformativeInherited
Fly Anatomy (FA)adult brain0.2229InformativeInherited
Fly Anatomy (FA)tract0.2416InformativeInherited
Fly Anatomy (FA)eye photoreceptor cell0.3688InformativeInherited
Fly Anatomy (FA)embryonic/larval peripheral nervous system0.6233InformativeInherited
Fly Anatomy (FA)chaeta0.6625InformativeInherited
Fly Anatomy (FA)neuroblast0.8197InformativeInherited
Fly Anatomy (FA)ventral nerve cord primordium0.00000001831Highly InformativeDirect
Fly Anatomy (FA)embryonic neuroblast0.000002734Highly InformativeDirect
Fly Anatomy (FA)trunk mesoderm derivative0.00000656Highly InformativeDirect
Fly Anatomy (FA)commissure0.00001446Highly InformativeDirect
Fly Anatomy (FA)mesothoracic tergum0.00005341Highly InformativeDirect
Fly Anatomy (FA)antennal lobe glomerulus VA1v0.00006624Highly InformativeDirect
Fly Anatomy (FA)segment of leg0.00009157Highly InformativeDirect
Fly Anatomy (FA)presumptive embryonic/larval central nervous system0.00009757Highly InformativeDirect
Fly Anatomy (FA)ventral nervous system0.0002485Highly InformativeDirect
Fly Anatomy (FA)adult metathoracic segment0.000342Highly InformativeDirect
Fly Anatomy (FA)head bristle0.0003638Highly InformativeDirect
Fly Anatomy (FA)larval abdominal segment 20.0004976Highly InformativeDirect
Fly Anatomy (FA)maxillary palp sense organ0.0009895Highly InformativeDirect
Fly Anatomy (FA)denticle belt0.001051Highly InformativeInherited
Fly Anatomy (FA)sensillum basiconicum0.04048Highly InformativeInherited
Fly Anatomy (FA)third segment of antenna0.04756Highly InformativeInherited
Fly Anatomy (FA)olfactory sensory organ0.2857Highly InformativeInherited
Fly Anatomy (FA)antennal lobe projection neuron iPN0.3126Highly InformativeInherited
Fly Anatomy (FA)larval mesothoracic segment0.4303Highly InformativeInherited
Fly Anatomy (FA)adult antennal sense organ0.445Highly InformativeInherited
Fly Anatomy (FA)antennal lobe projection neuron adPN0.452Highly InformativeInherited
Fly Anatomy (FA)unilateral ACT relay interneuron0.7505Highly 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 structure0.01035Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.06931Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.07405Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.1537Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.2599Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.9027Moderately InformativeInherited
Zebrafish Anatomy (ZA)diencephalon0.00007814InformativeDirect
Zebrafish Anatomy (ZA)digestive system0.374InformativeInherited
Zebrafish Anatomy (ZA)pleuroperitoneal region0.9148InformativeInherited
Zebrafish Anatomy (ZA)endocrine system0.004154Highly InformativeInherited
Zebrafish Anatomy (ZA)embryonic structure0.2779Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.0000000000001095Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.000009235Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0.02163Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.3128Least 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)ectoderm0.001964Moderately InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.2538Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.2819Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)forebrain0InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0InformativeDirect
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)endoderm0.0000000000001394InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode0.000000000000557InformativeDirect
Xenopus ANatomical entity (XAN)eye0.000000000001104InformativeDirect
Xenopus ANatomical entity (XAN)cardiovascular system0.000000000004594InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system0.00000000005653InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.000000131InformativeDirect
Xenopus ANatomical entity (XAN)lateral plate mesoderm0.00001778InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.00003019InformativeDirect
Xenopus ANatomical entity (XAN)somite0.0002227InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.003157InformativeInherited
Xenopus ANatomical entity (XAN)skeletal system0.02101InformativeInherited
Xenopus ANatomical entity (XAN)tail0.7367InformativeInherited
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)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)non-neural ectoderm0Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural fold7.33e-16Highly InformativeDirect
Xenopus ANatomical entity (XAN)anatomical line0.00000000000004092Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial neural crest0.0000000000001329Highly InformativeDirect
Xenopus ANatomical entity (XAN)foregut0.0000000000009472Highly InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000000002333Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail tip0.000000000003014Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border0.000000000003361Highly InformativeDirect
Xenopus ANatomical entity (XAN)head mesenchyme0.0000000003395Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic field0.000000003296Highly InformativeDirect
Xenopus ANatomical entity (XAN)proliferative region0.00000001393Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindgut0.00000009574Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindlimb0.0000002322Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted dorsal mesoderm0.0000008259Highly InformativeDirect
Xenopus ANatomical entity (XAN)primordium0.0000009071Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastema0.000005172Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail bud0.000007514Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial nerve0.00001449Highly InformativeDirect
Xenopus ANatomical entity (XAN)notochord0.0000149Highly InformativeDirect
Xenopus ANatomical entity (XAN)ganglion0.00002005Highly InformativeDirect
Xenopus ANatomical entity (XAN)retinal ganglion cell layer0.00002387Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural groove0.00002626Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system0.00003444Highly InformativeDirect
Xenopus ANatomical entity (XAN)intersomitic region0.0001878Highly InformativeDirect
Xenopus ANatomical entity (XAN)pronephric kidney0.1064Highly InformativeInherited
Xenopus ANatomical entity (XAN)marginal zone1Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage1Least InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.0000000001523Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)climax stage1Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)tailbud stage0.9955InformativeInherited
Xenopus DEvelopment stage (XDE)premetamorphosis stage0.07423Highly InformativeInherited
Xenopus DEvelopment stage (XDE)gastrula stage0.1354Highly InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

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AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0.6372Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.8214Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.8881Least 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 tip0.000000003819InformativeDirect
Plant ANatomical entity (PAN)portion of vascular tissue0.000000004845InformativeDirect
Plant ANatomical entity (PAN)primordium0.00000004156InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.00000009836InformativeDirect
Plant ANatomical entity (PAN)fruit0.0005241InformativeDirect
Plant ANatomical entity (PAN)root epidermis0.04584InformativeInherited
Plant ANatomical entity (PAN)shoot apical meristem0.00000000000009703Highly InformativeDirect
Plant ANatomical entity (PAN)reproductive shoot apex0.0000000001163Highly InformativeDirect
Plant ANatomical entity (PAN)primary root0.000000005808Highly InformativeDirect
Plant ANatomical entity (PAN)vegetative shoot apex0.000000008114Highly InformativeDirect
Plant ANatomical entity (PAN)plant ovule0.00000003728Highly InformativeDirect
Plant ANatomical entity (PAN)phyllome primordium0.00000009103Highly InformativeDirect
Plant ANatomical entity (PAN)trichome0.000001876Highly InformativeDirect
Plant ANatomical entity (PAN)plant axis elongation zone0.000008834Highly InformativeDirect
Plant ANatomical entity (PAN)anther0.00001191Highly InformativeDirect
Plant ANatomical entity (PAN)juvenile vascular leaf0.00002116Highly InformativeDirect
Plant ANatomical entity (PAN)phyllome vascular system0.00006858Highly InformativeDirect
Plant ANatomical entity (PAN)style0.0001107Highly InformativeDirect
Plant ANatomical entity (PAN)root stele0.0002803Highly InformativeDirect
Plant ANatomical entity (PAN)lateral root0.0003871Highly InformativeDirect
Plant ANatomical entity (PAN)root meristem0.006474Highly InformativeInherited
Plant structure DEvelopment stage (PDE)seedling development stage0.0005929InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

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EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.3407Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00000007071Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.0139Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.2549Moderately 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 ]