SUPERFAMILY 1.75 HMM library and genome assignments server


Nuclear receptor ligand-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Nuclear receptor ligand-binding domain [ 48507]
Superfamily:   Nuclear receptor ligand-binding domain [ 48508]
Families:   Nuclear receptor ligand-binding domain [ 48509] (33)


Superfamily statistics
Genomes (139) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 7,669 8,886 148
Proteins 7,550 8,826 148


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)regulation of metabolic process00Least InformativeDirect
Biological Process (BP)developmental process0.00043760Least InformativeDirect
Biological Process (BP)regulation of cellular process3.315e-147.981e-09Least InformativeDirect
Biological Process (BP)single-organism cellular process0.0085472.258e-14Least InformativeInherited
Biological Process (BP)response to stimulus0.31570Least InformativeInherited
Biological Process (BP)localization0.18550.7102Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0015520Least InformativeInherited
Biological Process (BP)regulation of biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00Moderately InformativeDirect
Biological Process (BP)regulation of cellular metabolic process00Moderately InformativeDirect
Biological Process (BP)regulation of nitrogen compound metabolic process00Moderately InformativeDirect
Biological Process (BP)regulation of molecular function0.13160.5538Moderately InformativeInherited
Biological Process (BP)nervous system development0.0042821Moderately InformativeInherited
Biological Process (BP)signal transduction0.9832.163e-13Moderately InformativeInherited
Biological Process (BP)single-organism developmental process0.0092270Moderately InformativeInherited
Biological Process (BP)organ development0.023861.566e-13Moderately InformativeInherited
Biological Process (BP)locomotion5.833e-050.0001625InformativeDirect
Biological Process (BP)localization of cell3.813e-061.054e-06InformativeDirect
Biological Process (BP)negative regulation of molecular function0.017140.1848InformativeInherited
Biological Process (BP)central nervous system development0.00018760.03941InformativeInherited
Biological Process (BP)cellular component movement0.0003050.1896InformativeInherited
Biological Process (BP)negative regulation of sequence-specific DNA binding transcription factor activity4.802e-051.237e-05Highly InformativeDirect
Biological Process (BP)telencephalon development7.47e-050.00131Highly InformativeInherited
Molecular Function (MF)binding1.47e-090Least InformativeDirect
Molecular Function (MF)organic cyclic compound binding3.557e-070Moderately InformativeDirect
Molecular Function (MF)heterocyclic compound binding1.795e-070Moderately InformativeDirect
Molecular Function (MF)nucleic acid binding transcription factor activity2.196e-120InformativeDirect
Molecular Function (MF)DNA binding00InformativeDirect
Molecular Function (MF)sequence-specific DNA binding transcription factor activity5.171e-130Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.00098470Least InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular aromatic compound metabolic process 2.517e-08 Least Informative Direct
Biological Process (BP) biosynthetic process 7.43e-11 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 2.258e-14 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 7.639e-08 Least Informative Direct
Biological Process (BP) regulation of cellular process 7.981e-09 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) localization 0.7102 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.02942 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.001772 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.06147 Least Informative Inherited
Biological Process (BP) reproduction 0 Moderately Informative Direct
Biological Process (BP) signal transduction 2.163e-13 Moderately Informative Direct
Biological Process (BP) tissue development 0.0007333 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 1.668e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 3.829e-10 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 0 Moderately Informative Direct
Biological Process (BP) monocarboxylic acid metabolic process 0.0007398 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) organ development 1.566e-13 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 2.988e-06 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) multi-organism process 5.683e-10 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 2.283e-07 Moderately Informative Direct
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.06355 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9271 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.5538 Moderately Informative Inherited
Biological Process (BP) ion transport 0.2863 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.01529 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.09681 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.586 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.003212 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.3383 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.6317 Moderately Informative Inherited
Biological Process (BP) developmental process involved in reproduction 9.406e-07 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 3.142e-06 Informative Direct
Biological Process (BP) lipid transport 1.185e-05 Informative Direct
Biological Process (BP) steroid metabolic process 0 Informative Direct
Biological Process (BP) cell proliferation 1.181e-06 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 3.945e-12 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.0004265 Informative Direct
Biological Process (BP) organic acid transport 0.0008644 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 2.224e-06 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 1.221e-12 Informative Direct
Biological Process (BP) regulation of protein localization 0.0004673 Informative Direct
Biological Process (BP) response to lipid 0 Informative Direct
Biological Process (BP) tube development 7.53e-05 Informative Direct
Biological Process (BP) growth 4.22e-08 Informative Direct
Biological Process (BP) locomotion 0.0001625 Informative Direct
Biological Process (BP) regulation of cell proliferation 1.646e-06 Informative Direct
Biological Process (BP) single organism reproductive process 6.856e-11 Informative Direct
Biological Process (BP) multi-organism reproductive process 4.442e-11 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0001559 Informative Direct
Biological Process (BP) gland development 0 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) localization of cell 1.054e-06 Informative Direct
Biological Process (BP) reproductive system development 0.0009717 Informative Direct
Biological Process (BP) regulation of secretion 0.05153 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.87 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.06056 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.801 Informative Inherited
Biological Process (BP) regulation of reproductive process 0.0419 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.002164 Informative Inherited
Biological Process (BP) organ morphogenesis 0.07444 Informative Inherited
Biological Process (BP) epithelium development 0.8754 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.1741 Informative Inherited
Biological Process (BP) muscle tissue development 0.4527 Informative Inherited
Biological Process (BP) muscle structure development 0.556 Informative Inherited
Biological Process (BP) regulation of system process 0.05078 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 1 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.3955 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.8822 Informative Inherited
Biological Process (BP) sensory organ development 1 Informative Inherited
Biological Process (BP) embryonic organ development 0.02258 Informative Inherited
Biological Process (BP) anion transport 0.0459 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.02299 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.002589 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.2499 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.1848 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.1637 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.1081 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.5353 Informative Inherited
Biological Process (BP) cardiovascular system development 0.8997 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.003351 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.1776 Informative Inherited
Biological Process (BP) regulation of nervous system development 1 Informative Inherited
Biological Process (BP) cellular cation homeostasis 0.2531 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) cell projection organization 1 Informative Inherited
Biological Process (BP) generation of neurons 0.347 Informative Inherited
Biological Process (BP) central nervous system development 0.03941 Informative Inherited
Biological Process (BP) cellular component movement 0.1896 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.01343 Informative Inherited
Biological Process (BP) response to external stimulus 0.9982 Informative Inherited
Biological Process (BP) sexual reproduction 1 Informative Inherited
Biological Process (BP) metal ion homeostasis 0.005132 Informative Inherited
Biological Process (BP) regulation of cell development 1 Informative Inherited
Biological Process (BP) chordate embryonic development 0.07988 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) epithelial cell development 0.0007833 Highly Informative Direct
Biological Process (BP) spermatogenesis 7.64e-05 Highly Informative Direct
Biological Process (BP) gonad development 0 Highly Informative Direct
Biological Process (BP) negative regulation of signal transduction 0.000131 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 1.873e-06 Highly Informative Direct
Biological Process (BP) regulation of lipid storage 5.361e-06 Highly Informative Direct
Biological Process (BP) monocarboxylic acid transport 5.938e-08 Highly Informative Direct
Biological Process (BP) ovulation cycle process 9.02e-14 Highly Informative Direct
Biological Process (BP) cardiocyte differentiation 4.123e-06 Highly Informative Direct
Biological Process (BP) endocrine system development 7.592e-13 Highly Informative Direct
Biological Process (BP) negative regulation of sequence-specific DNA binding transcription factor activity 1.237e-05 Highly Informative Direct
Biological Process (BP) multi-multicellular organism process 0 Highly Informative Direct
Biological Process (BP) regulation of nitric oxide biosynthetic process 0.000627 Highly Informative Direct
Biological Process (BP) developmental growth 0.0009851 Highly Informative Direct
Biological Process (BP) cardiac muscle tissue development 0.0002717 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 1.896e-14 Highly Informative Direct
Biological Process (BP) lipid homeostasis 2.359e-05 Highly Informative Direct
Biological Process (BP) mammary gland alveolus development 7.624e-07 Highly Informative Direct
Biological Process (BP) mammary gland epithelium development 0 Highly Informative Direct
Biological Process (BP) cellular response to organic cyclic compound 0.000382 Highly Informative Direct
Biological Process (BP) regulation of steroid biosynthetic process 0.03112 Highly Informative Inherited
Biological Process (BP) cellular response to metal ion 0.001772 Highly Informative Inherited
Biological Process (BP) epithelial tube morphogenesis 0.01234 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.0503 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.01429 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.06245 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.5667 Highly Informative Inherited
Biological Process (BP) regulation of neurological system process 0.09706 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.5943 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.2298 Highly Informative Inherited
Biological Process (BP) positive regulation of lipid metabolic process 0.3703 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.2839 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.1048 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) lipid modification 0.02911 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.003073 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) regulation of ion homeostasis 0.0228 Highly Informative Inherited
Biological Process (BP) axonogenesis 0.05997 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.9695 Highly Informative Inherited
Biological Process (BP) telencephalon development 0.00131 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.01998 Highly Informative Inherited
Biological Process (BP) response to carbohydrate stimulus 0.3598 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.001168 Highly Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.3652 Highly Informative Inherited
Biological Process (BP) regulation of myeloid cell differentiation 0.5148 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.5868 Highly Informative Inherited
Biological Process (BP) development of primary female sexual characteristics 0.1473 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) organic cyclic compound binding 0 Moderately Informative Direct
Molecular Function (MF) heterocyclic compound binding 0 Moderately Informative Direct
Molecular Function (MF) anion binding 0.05034 Moderately Informative Inherited
Molecular Function (MF) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) receptor binding 8.03e-08 Informative Direct
Molecular Function (MF) lipid binding 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 1.082e-11 Informative Direct
Molecular Function (MF) protein dimerization activity 2.241e-08 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) chromatin binding 0.0001105 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) steroid binding 5.3e-15 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) drug binding 6.078e-08 Highly Informative Direct
Molecular Function (MF) monocarboxylic acid binding 0 Highly Informative Direct
Molecular Function (MF) hormone binding 3.255e-12 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0.4451 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9244 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 1 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.09176 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.0001099 Informative Direct
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) chromatin 3.364e-08 Highly Informative Direct
Cellular Component (CC) transcription factor complex 5.305e-08 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.005435 Highly Informative Inherited

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.05623Least InformativeInherited
Disease Ontology (DO)disease of metabolism9.75e-07Moderately InformativeDirect
Disease Ontology (DO)vascular disease0.0005302Moderately InformativeDirect
Disease Ontology (DO)endocrine system disease0.0008283Moderately InformativeDirect
Disease Ontology (DO)gastrointestinal system disease0.004559Moderately InformativeInherited
Disease Ontology (DO)benign neoplasm0.03744Moderately InformativeInherited
Disease Ontology (DO)overnutrition1.477e-07InformativeDirect
Disease Ontology (DO)alopecia0.0001241InformativeDirect
Disease Ontology (DO)familial hyperlipidemia0.0001393InformativeDirect
Disease Ontology (DO)adenoma0.0001893InformativeDirect
Disease Ontology (DO)breast carcinoma0.03734InformativeInherited
Disease Ontology (DO)lysosomal storage disease0.06894InformativeInherited
Disease Ontology (DO)female reproductive organ cancer0.0859InformativeInherited
Disease Ontology (DO)organ system benign neoplasm0.1866InformativeInherited
Disease Ontology (DO)thyroid gland disease0.1925InformativeInherited
Disease Ontology (DO)physical disorder0.3871InformativeInherited
Disease Ontology (DO)pancreas disease0.745InformativeInherited
Disease Ontology (DO)cholelithiasis8.872e-07Highly InformativeDirect
Disease Ontology (DO)hypospadias1.27e-06Highly InformativeDirect
Disease Ontology (DO)thoracic disease0.0005735Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.4684Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genital system0.2457Moderately InformativeInherited
Phenotypic Abnormality (PA)Puberty and gonadal disorders0.4684InformativeInherited
Phenotypic Abnormality (PA)Amenorrhea0.001035Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis4.524e-05Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.009942Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.01114Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.04526Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.06446Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.06505Least InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology2.485e-05Moderately InformativeDirect
Mammalian Phenotype (MP)liver/biliary system phenotype2.946e-05Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal hormone level0.0002756Moderately InformativeDirect
Mammalian Phenotype (MP)behavior/neurological phenotype0.000387Moderately InformativeDirect
Mammalian Phenotype (MP)digestive/alimentary phenotype0.004339Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.02248Moderately InformativeInherited
Mammalian Phenotype (MP)renal/urinary system phenotype0.04353Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell morphology0.04589Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.0604Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.0725Moderately InformativeInherited
Mammalian Phenotype (MP)embryogenesis phenotype0.1208Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.1218Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.1415Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.1762Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.2009Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.3027Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.3543Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.4478Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.4724Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.5223Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.5448Moderately InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.8028Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lipid level0.8109Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal internal female genitalia morphology4.41e-07InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology7.853e-07InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology0.0003763InformativeDirect
Mammalian Phenotype (MP)abnormal circulating lipid level0.0004462InformativeDirect
Mammalian Phenotype (MP)abnormal circulating hormone level0.001557InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.002463InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.004552InformativeInherited
Mammalian Phenotype (MP)abnormal renal corpuscle morphology0.006322InformativeInherited
Mammalian Phenotype (MP)abnormal embryonic tissue morphology0.006829InformativeInherited
Mammalian Phenotype (MP)abnormal macrophage morphology0.007273InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive system physiology0.04312InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.04898InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid morphology0.05238InformativeInherited
Mammalian Phenotype (MP)abnormal stomach morphology0.06642InformativeInherited
Mammalian Phenotype (MP)abnormal bone structure0.1097InformativeInherited
Mammalian Phenotype (MP)abnormal artery morphology0.1214InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial development0.1226InformativeInherited
Mammalian Phenotype (MP)abnormal cranium morphology0.1264InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.1932InformativeInherited
Mammalian Phenotype (MP)abnormal vertebrae morphology0.2977InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.338InformativeInherited
Mammalian Phenotype (MP)abnormal skin appearance0.5077InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.5605InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.9126InformativeInherited
Mammalian Phenotype (MP)abnormal circulating testosterone level2.398e-08Highly InformativeDirect
Mammalian Phenotype (MP)abnormal sublingual gland morphology4.139e-07Highly InformativeDirect
Mammalian Phenotype (MP)rudimentary Mullerian ducts1.257e-06Highly InformativeDirect
Mammalian Phenotype (MP)split cervical axis1.257e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cricoid cartilage morphology2.289e-06Highly InformativeDirect
Mammalian Phenotype (MP)absent fetal ductus arteriosus2.896e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight3.055e-06Highly InformativeDirect
Mammalian Phenotype (MP)persistent hyperplastic primary vitreous9.739e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland alveolus morphology2.893e-05Highly InformativeDirect
Mammalian Phenotype (MP)increased renin activity3.451e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal stomach epithelium morphology0.0001904Highly InformativeDirect
Mammalian Phenotype (MP)abnormal retinal development0.0002661Highly InformativeDirect
Mammalian Phenotype (MP)abnormal abdominal fat pad morphology0.0009957Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cervical atlas morphology0.003028Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.004984Highly InformativeInherited
Mammalian Phenotype (MP)abnormal uterus morphology0.005895Highly InformativeInherited
Mammalian Phenotype (MP)abnormal thymus development0.007872Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cornea morphology0.00926Highly InformativeInherited
Mammalian Phenotype (MP)abnormal basal ganglion morphology0.00996Highly InformativeInherited
Mammalian Phenotype (MP)abnormal middle ear ossicle morphology0.01011Highly InformativeInherited
Mammalian Phenotype (MP)abnormal long term depression0.01139Highly InformativeInherited
Mammalian Phenotype (MP)abnormal neurocranium morphology0.01605Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid aperture0.02609Highly InformativeInherited
Mammalian Phenotype (MP)abnormal basicranium morphology0.02954Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.03054Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aldosterone level0.03786Highly InformativeInherited
Mammalian Phenotype (MP)abnormal compact bone morphology0.04352Highly InformativeInherited
Mammalian Phenotype (MP)abnormal branchial arch morphology0.04412Highly InformativeInherited
Mammalian Phenotype (MP)abnormal ureter morphology0.05589Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vertebral arch morphology0.06609Highly InformativeInherited
Mammalian Phenotype (MP)abnormal gland physiology0.06811Highly InformativeInherited
Mammalian Phenotype (MP)abnormal circulating insulin-like growth factor I level0.06874Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fat cell morphology0.08076Highly InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.08628Highly InformativeInherited
Mammalian Phenotype (MP)vertebral fusion0.09476Highly InformativeInherited
Mammalian Phenotype (MP)abnormal circadian period0.1035Highly InformativeInherited
Mammalian Phenotype (MP)abnormal heart development0.1359Highly InformativeInherited
Mammalian Phenotype (MP)internal hemorrhage0.154Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant1Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant1Moderately InformativeInherited
Worm Phenotype (WP)lipid metabolism variant8.13e-06InformativeDirect
Worm Phenotype (WP)failure to hatch1.132e-08Highly InformativeDirect
Worm Phenotype (WP)fat content increased1.174e-05Highly InformativeDirect
Worm Phenotype (WP)dauer arrest variant0.0156Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)behavior defective0.05197Moderately InformativeInherited
Fly Phenotype (FP)mating defective0.002109InformativeInherited
Fly Phenotype (FP)courtship behavior defective0.0009466Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0.105Least InformativeInherited
Fly Anatomy (FA)digestive system0.0009085InformativeDirect
Fly Anatomy (FA)gland0.0006031Highly InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.001459Least InformativeInherited
Xenopus DEvelopment stage (XDE)gastrula0.4508InformativeInherited

Document: XA annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)genito urinary system and sex hormones0.0007968Moderately InformativeDirect
Drugbank ATC_code (DB)dermatologicals0.008367Moderately InformativeInherited
Drugbank ATC_code (DB)other antipsoriatics for topical use4.673e-08InformativeDirect
Drugbank ATC_code (DB)sex hormones and modulators of the genital system1.915e-06InformativeDirect
Drugbank ATC_code (DB)endocrine therapy0.0002569InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processDifferentiation0.156Moderately InformativeInherited
Biological processSensory transduction0.02107InformativeInherited
Biological processVision5.56e-07Highly InformativeDirect
Biological processSpermatogenesis0.000326Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing5.565e-09Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionZinc-finger0Moderately InformativeDirect
Molecular functionLipid-binding0InformativeDirect
Molecular functionSteroid-binding0Highly InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein2.966e-06Moderately InformativeDirect
Post-translational modificationChromatin regulator1.746e-08InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationPalmitate0Moderately InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR008946 SSF48508 Protein matches
Abstract


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · DrugBank ATC (DB) · 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 38 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 Nuclear receptor ligand-binding domain domain.


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


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

There are 38 hidden Markov models representing the Nuclear receptor ligand-binding domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]