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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 disease0.6972Moderately 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 inheritance0.000002776Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the head0.01066Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.03095Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.03415Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.3187Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.6757Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.9145Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal globe morphology0.01927Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skull0.1405Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the orbital region0.2119Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.2239Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.5087Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.5686Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.6694Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.8654Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.8994Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thyroid gland0.02351InformativeInherited
Phenotypic Abnormality (PA)Abnormal palate morphology0.04199InformativeInherited
Phenotypic Abnormality (PA)Short stature0.05041InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hypothalamus-pituitary axis0.07153InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.1331InformativeInherited
Phenotypic Abnormality (PA)Abnormality of upper lip0.1361InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the calvaria0.2156InformativeInherited
Phenotypic Abnormality (PA)Abnormality of circulating hormone level0.3984InformativeInherited
Phenotypic Abnormality (PA)Abdominal symptom0.3988InformativeInherited
Phenotypic Abnormality (PA)Abnormal cornea morphology0.7219InformativeInherited
Phenotypic Abnormality (PA)Abnormal ear morphology0.8649InformativeInherited
Phenotypic Abnormality (PA)Abdominal distention0.0000551Highly InformativeDirect
Phenotypic Abnormality (PA)Cleft upper lip0.0002507Highly InformativeDirect
Phenotypic Abnormality (PA)Anterior segment dysgenesis0.0006728Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of circulating adrenocorticotropin level0.0008642Highly InformativeDirect
Phenotypic Abnormality (PA)Hypothyroidism0.001946Highly InformativeInherited
Phenotypic Abnormality (PA)Cleft palate0.3458Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the middle ear0.5455Highly InformativeInherited
Phenotypic Abnormality (PA)Reduced bone mineral density0.785Highly 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 phenotype0.000000000000517Least InformativeDirect
Mammalian Phenotype (MP)growth/size/body region phenotype0.00000004178Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0.00000007996Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.004855Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.3515Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7212Least 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 weaning0.0000000000008944Moderately InformativeDirect
Mammalian Phenotype (MP)embryo phenotype0.00000000000413Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.0000000002982Moderately InformativeDirect
Mammalian Phenotype (MP)limbs/digits/tail phenotype0.000000001281Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.0000002659Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.000003662Moderately InformativeDirect
Mammalian Phenotype (MP)respiratory system phenotype0.00001104Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal digestive system morphology0.0007242Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal muscle morphology0.006622Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.01342Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.01756Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.04332Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.04815Moderately InformativeInherited
Mammalian Phenotype (MP)reproductive system phenotype0.05203Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.1888Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.2997Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.3408Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.4434Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.7018Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.8066Moderately 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 lethality0.000000000328InformativeDirect
Mammalian Phenotype (MP)abnormal head morphology0.0000003857InformativeDirect
Mammalian Phenotype (MP)normal phenotype0.000006583InformativeDirect
Mammalian Phenotype (MP)abnormal cell differentiation0.0000603InformativeDirect
Mammalian Phenotype (MP)abnormal gas homeostasis0.00006299InformativeDirect
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.0001057InformativeDirect
Mammalian Phenotype (MP)abnormal spinal cord morphology0.000302InformativeDirect
Mammalian Phenotype (MP)abnormal eye development0.001051InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.001103InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.002028InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.002405InformativeInherited
Mammalian Phenotype (MP)abnormal vertebrae morphology0.00289InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.002978InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.02463InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.03189InformativeInherited
Mammalian Phenotype (MP)abnormal hypaxial muscle morphology0.06347InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.06397InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.09495InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology0.1155InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.131InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.1628InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2041InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive gland morphology0.2345InformativeInherited
Mammalian Phenotype (MP)abnormal sex determination0.2774InformativeInherited
Mammalian Phenotype (MP)abnormal pancreas morphology0.3482InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive gland morphology0.5328InformativeInherited
Mammalian Phenotype (MP)abnormal viscerocranium morphology0.5336InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.6512InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.6804InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.7613InformativeInherited
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 morphology0.9614InformativeInherited
Mammalian Phenotype (MP)abnormal metencephalon morphology0.9765InformativeInherited
Mammalian Phenotype (MP)cyanosis0.000000002733Highly InformativeDirect
Mammalian Phenotype (MP)abnormal middle ear morphology0.000000004075Highly InformativeDirect
Mammalian Phenotype (MP)abnormal joint morphology0.0000002198Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.0000006418Highly InformativeDirect
Mammalian Phenotype (MP)abnormal brain ventricle morphology0.000001294Highly InformativeDirect
Mammalian Phenotype (MP)distended abdomen0.000001446Highly InformativeDirect
Mammalian Phenotype (MP)abnormal forelimb morphology0.000005167Highly InformativeDirect
Mammalian Phenotype (MP)abnormal secondary palate development0.000005414Highly InformativeDirect
Mammalian Phenotype (MP)postnatal lethality0.00002367Highly InformativeDirect
Mammalian Phenotype (MP)abnormal neurocranium morphology0.00003738Highly InformativeDirect
Mammalian Phenotype (MP)abnormal vas deferens morphology0.00003895Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circumventricular organ morphology0.00005699Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mandibular coronoid process morphology0.000183Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nose morphology0.0003168Highly InformativeDirect
Mammalian Phenotype (MP)abnormal telencephalon development0.0003448Highly InformativeDirect
Mammalian Phenotype (MP)abnormal kidney development0.0004252Highly InformativeDirect
Mammalian Phenotype (MP)abnormal right subclavian artery morphology0.0006033Highly InformativeDirect
Mammalian Phenotype (MP)impaired branching involved in ureteric bud morphogenesis0.0006346Highly InformativeDirect
Mammalian Phenotype (MP)abnormal tongue morphology0.001204Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aortic arch morphology0.001519Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary gland morphology0.007705Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sternum morphology0.01072Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.01156Highly 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 morphology0.03425Highly InformativeInherited
Mammalian Phenotype (MP)abnormal alveolar process morphology0.2652Highly InformativeInherited
Mammalian Phenotype (MP)abnormal olfactory bulb layer morphology0.2678Highly InformativeInherited
Mammalian Phenotype (MP)abnormal trabecular meshwork morphology0.2766Highly InformativeInherited
Mammalian Phenotype (MP)abnormal mesonephros morphology0.2922Highly InformativeInherited
Mammalian Phenotype (MP)abnormal food intake0.4944Highly 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 variant0.00000003046Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000002052Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0000002396Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.06122Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.09332Least InformativeInherited
Worm Phenotype (WP)larval lethal0.3494Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.7702Least InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.000000001067Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.000000007211Moderately InformativeDirect
Worm Phenotype (WP)nervous system morphology variant0.000007142Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.596Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.8017Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.8061Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.8188Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.8508Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9215Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant1Moderately InformativeInherited
Worm Phenotype (WP)male morphology variant0.00000000006184InformativeDirect
Worm Phenotype (WP)tail morphology variant0.00004164InformativeDirect
Worm Phenotype (WP)protein degradation variant0.0006315InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.05074InformativeInherited
Worm Phenotype (WP)locomotor coordination variant0.05203InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.155InformativeInherited
Worm Phenotype (WP)body posture variant0.2084InformativeInherited
Worm Phenotype (WP)vulva development variant0.2303InformativeInherited
Worm Phenotype (WP)egg laying variant0.2995InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.4248InformativeInherited
Worm Phenotype (WP)locomotion reduced0.6183InformativeInherited
Worm Phenotype (WP)drug resistant0.6797InformativeInherited
Worm Phenotype (WP)VPC competence variant1InformativeInherited
Worm Phenotype (WP)cell number increased1InformativeInherited
Worm Phenotype (WP)lineage variant0.00000005853Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.00000006435Highly InformativeDirect
Worm Phenotype (WP)body axis morphology variant0.0000007203Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.00001422Highly InformativeDirect
Worm Phenotype (WP)cell number decreased0.00005485Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.00005521Highly InformativeDirect
Worm Phenotype (WP)growth rate variant0.0001136Highly InformativeDirect
Worm Phenotype (WP)neuronal cell fate specification variant0.0001615Highly InformativeDirect
Worm Phenotype (WP)male tail development variant0.0003095Highly InformativeDirect
Worm Phenotype (WP)vulvaless0.0003294Highly InformativeDirect
Worm Phenotype (WP)coiling frequency0.0003747Highly InformativeDirect
Worm Phenotype (WP)multiple anchor cells0.0004483Highly InformativeDirect
Worm Phenotype (WP)male nervous system development variant0.00061Highly InformativeDirect
Worm Phenotype (WP)early larval lethal0.0008568Highly InformativeDirect
Worm Phenotype (WP)cell fusion variant0.0009318Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.0009654Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.01986Highly InformativeInherited
Worm Phenotype (WP)egg retention0.4159Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.07717Least InformativeInherited
Fly Phenotype (FP)lethal - all die before end of P-stage0.03308Moderately InformativeInherited
Fly Phenotype (FP)visible0InformativeDirect
Fly Phenotype (FP)lethal - all die before end of first instar larval stage0.0000000002436InformativeDirect
Fly Phenotype (FP)wild-type0.0005623InformativeDirect
Fly Phenotype (FP)lethal - all die before end of embryonic stage0.00000000001245Highly InformativeDirect
Fly Phenotype (FP)homeotic0.00000006565Highly InformativeDirect
Fly Phenotype (FP)some die during embryonic stage0.000009506Highly InformativeDirect
Fly Phenotype (FP)some die during P-stage0.3416Highly 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 subdivision0.000000000008773Least InformativeDirect
Fly Anatomy (FA)adult0.0000000007771Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0.000891Least InformativeDirect
Fly Anatomy (FA)anatomical group0.0009104Least InformativeDirect
Fly Anatomy (FA)embryo0.004581Least InformativeInherited
Fly Anatomy (FA)larva0.02031Least InformativeInherited
Fly Anatomy (FA)nervous system0.3031Least InformativeInherited
Fly Anatomy (FA)somatic cell0.351Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)adult integumentary system0.0000003794Moderately InformativeDirect
Fly Anatomy (FA)developing embryonic structure0.000001074Moderately InformativeDirect
Fly Anatomy (FA)appendage0.0000147Moderately InformativeDirect
Fly Anatomy (FA)multi-cell-component structure0.00001474Moderately InformativeDirect
Fly Anatomy (FA)adult thorax0.000138Moderately InformativeDirect
Fly Anatomy (FA)acellular anatomical structure0.0001407Moderately InformativeDirect
Fly Anatomy (FA)cell cluster organ0.0002222Moderately InformativeDirect
Fly Anatomy (FA)sense organ0.001023Moderately InformativeInherited
Fly Anatomy (FA)ganglion0.001207Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.00157Moderately InformativeInherited
Fly Anatomy (FA)neuron0.04809Moderately InformativeInherited
Fly Anatomy (FA)tagmatic subdivision of integument0.08361Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.204Moderately InformativeInherited
Fly Anatomy (FA)late embryo0.25Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.3242Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.3603Moderately InformativeInherited
Fly Anatomy (FA)thoracic segment0.3808Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.4847Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.8592Moderately InformativeInherited
Fly Anatomy (FA)head0.898Moderately InformativeInherited
Fly Anatomy (FA)larval abdomen0.0000000001849InformativeDirect
Fly Anatomy (FA)interneuron0.00001049InformativeDirect
Fly Anatomy (FA)adult external head0.00001111InformativeDirect
Fly Anatomy (FA)syncytium0.0001892InformativeDirect
Fly Anatomy (FA)gland0.0002165InformativeDirect
Fly Anatomy (FA)abdominal segment0.0003075InformativeDirect
Fly Anatomy (FA)mechanosensory system0.000608InformativeDirect
Fly Anatomy (FA)primordium0.0006325InformativeDirect
Fly Anatomy (FA)adult procephalic segment0.000739InformativeDirect
Fly Anatomy (FA)extended germ band embryo0.001564InformativeInherited
Fly Anatomy (FA)muscle system0.002579InformativeInherited
Fly Anatomy (FA)synaptic neuropil0.008113InformativeInherited
Fly Anatomy (FA)nerve0.0117InformativeInherited
Fly Anatomy (FA)chemosensory system0.01579InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.01689InformativeInherited
Fly Anatomy (FA)neuromere0.02113InformativeInherited
Fly Anatomy (FA)embryonic/larval integumentary system0.05083InformativeInherited
Fly Anatomy (FA)leg0.06269InformativeInherited
Fly Anatomy (FA)supraesophageal ganglion0.155InformativeInherited
Fly Anatomy (FA)adult brain0.1972InformativeInherited
Fly Anatomy (FA)tract0.3015InformativeInherited
Fly Anatomy (FA)eye photoreceptor cell0.3827InformativeInherited
Fly Anatomy (FA)larval thoracic segment0.4782InformativeInherited
Fly Anatomy (FA)chaeta0.6822InformativeInherited
Fly Anatomy (FA)neuroblast0.8178InformativeInherited
Fly Anatomy (FA)neuroblast of ventral nerve cord primordium0.00000000184Highly InformativeDirect
Fly Anatomy (FA)trunk mesoderm derivative0.0000065Highly InformativeDirect
Fly Anatomy (FA)maxillary palpus0.000009544Highly InformativeDirect
Fly Anatomy (FA)commissure0.00001436Highly InformativeDirect
Fly Anatomy (FA)antennal lobe glomerulus VA1v0.00002843Highly InformativeDirect
Fly Anatomy (FA)mesothoracic tergum0.00004848Highly InformativeDirect
Fly Anatomy (FA)presumptive embryonic/larval central nervous system0.00008478Highly InformativeDirect
Fly Anatomy (FA)segment of leg0.00008989Highly InformativeDirect
Fly Anatomy (FA)ventral nervous system0.0003017Highly InformativeDirect
Fly Anatomy (FA)adult metathoracic segment0.000336Highly InformativeDirect
Fly Anatomy (FA)head bristle0.0003947Highly InformativeDirect
Fly Anatomy (FA)larval abdominal segment 20.0004963Highly InformativeDirect
Fly Anatomy (FA)denticle belt0.0011Highly InformativeInherited
Fly Anatomy (FA)sensillum basiconicum0.03562Highly InformativeInherited
Fly Anatomy (FA)third segment of antenna0.03745Highly InformativeInherited
Fly Anatomy (FA)olfactory sensory organ0.2534Highly InformativeInherited
Fly Anatomy (FA)antennal lobe projection neuron iPN0.3127Highly InformativeInherited
Fly Anatomy (FA)adult antennal sense organ0.4211Highly InformativeInherited
Fly Anatomy (FA)antennal lobe projection neuron adPN0.4527Highly InformativeInherited
Fly Anatomy (FA)unilateral ACT relay interneuron0.7517Highly 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 structure0.007646Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.0522Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.07908Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.1983Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.2799Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.8242Moderately InformativeInherited
Zebrafish Anatomy (ZA)brain0.003348InformativeInherited
Zebrafish Anatomy (ZA)digestive system0.3559InformativeInherited
Zebrafish Anatomy (ZA)musculature system0.7636InformativeInherited
Zebrafish Anatomy (ZA)embryonic structure0.2573Highly InformativeInherited
Zebrafish Anatomy (ZA)pleuroperitoneal region0.9137Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.0000000000002782Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.00001836Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0.03195Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.3193Least 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)ectoderm0.002477Moderately InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.2463Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.3288Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
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)pharyngeal region0InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.000000000000002923InformativeDirect
Xenopus ANatomical entity (XAN)endoderm0.00000000000007435InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode0.0000000000004484InformativeDirect
Xenopus ANatomical entity (XAN)eye0.0000000000008168InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000000001559InformativeDirect
Xenopus ANatomical entity (XAN)cardiovascular system0.000000000002643InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system0.00000000004829InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.00000006602InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0000247InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.002477InformativeInherited
Xenopus ANatomical entity (XAN)skeletal system0.02034InformativeInherited
Xenopus ANatomical entity (XAN)tail0.7437InformativeInherited
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)forebrain0Highly InformativeDirect
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 fold7.314e-16Highly InformativeDirect
Xenopus ANatomical entity (XAN)anatomical line0.00000000000003356Highly InformativeDirect
Xenopus ANatomical entity (XAN)otic vesicle0.00000000000008162Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial neural crest0.0000000000002505Highly InformativeDirect
Xenopus ANatomical entity (XAN)foregut0.0000000000005948Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border0.000000000002699Highly InformativeDirect
Xenopus ANatomical entity (XAN)head mesenchyme0.0000000001922Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic field0.000000002535Highly InformativeDirect
Xenopus ANatomical entity (XAN)proliferative region0.000000008233Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindgut0.00000006602Highly InformativeDirect
Xenopus ANatomical entity (XAN)chordoneural hinge0.0000001366Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindlimb0.0000002346Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted dorsal mesoderm0.0000007804Highly InformativeDirect
Xenopus ANatomical entity (XAN)primordium0.0000009099Highly InformativeDirect
Xenopus ANatomical entity (XAN)proximal tubule0.000001261Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted ventral mesoderm0.000005193Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastema0.000005239Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial nerve0.00001166Highly InformativeDirect
Xenopus ANatomical entity (XAN)notochord0.00001391Highly InformativeDirect
Xenopus ANatomical entity (XAN)retinal ganglion cell layer0.00001892Highly InformativeDirect
Xenopus ANatomical entity (XAN)ganglion0.00001902Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system0.00002434Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural groove0.00002516Highly InformativeDirect
Xenopus ANatomical entity (XAN)intersomitic region0.0001223Highly InformativeDirect
Xenopus ANatomical entity (XAN)marginal zone1Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage1Least InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.0000000001335Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)climax stage1Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)late tailbud stage0.08179InformativeInherited
Xenopus DEvelopment stage (XDE)premetamorphosis stage0.07512Highly InformativeInherited
Xenopus DEvelopment stage (XDE)gastrula stage0.1138Highly InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0.6372Least 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)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.3414Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00000007101Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.01367Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.2548Moderately 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 137 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 137 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 ]