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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 (165) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 8,248 10,494 148
Proteins 8,132 10,423 148


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)biological regulation0.00043870Least InformativeDirect
Biological Process (BP)regulation of biosynthetic process0.0000033430Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.0000040510Moderately InformativeDirect
Biological Process (BP)regulation of cellular metabolic process0.000087590Moderately InformativeDirect
Biological Process (BP)regulation of nitrogen compound metabolic process0.0000037610Moderately InformativeDirect
Biological Process (BP)regulation of molecular function0.001690.5757Moderately InformativeInherited
Biological Process (BP)regulation of transcription, DNA-templated0.0000002150.00000000000007089InformativeDirect
Biological Process (BP)negative regulation of molecular function0.016140.06823InformativeInherited
Biological Process (BP)regulation of sequence-specific DNA binding transcription factor activity0.0000025220.000005675Highly InformativeDirect
Molecular Function (MF)binding0.0000055350Least InformativeDirect
Molecular Function (MF)transcription factor activity, sequence-specific DNA binding0.0000023740InformativeDirect
Molecular Function (MF)signal transducer activity0.0004910InformativeDirect
Molecular Function (MF)molecular transducer activity0.0003650InformativeDirect
Molecular Function (MF)transcription factor activity, transcription factor binding0.000000085760Highly InformativeDirect
Molecular Function (MF)hormone binding0.0000094590Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.0018090Least InformativeInherited

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 0.000001049 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0000000001271 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.00007124 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.0000006717 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) biological regulation 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00000001721 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.1472 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.8412 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.2463 Least Informative Inherited
Biological Process (BP) reproduction 0.000000000002482 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0.00000707 Moderately Informative Direct
Biological Process (BP) cell communication 0.00000004794 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 0 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) signaling 0.000000000233 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) nucleobase-containing compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.00000000000001746 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.0000002716 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0006951 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.000000000000005508 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.00000000001404 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.7498 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.007819 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.03535 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.9587 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.1382 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.01284 Moderately Informative Inherited
Biological Process (BP) response to stress 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.7717 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.9079 Moderately Informative Inherited
Biological Process (BP) system development 0.006265 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.3086 Moderately Informative Inherited
Biological Process (BP) ion transport 0.3991 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.9567 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.4694 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.5757 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.7741 Moderately Informative Inherited
Biological Process (BP) generation of precursor metabolites and energy 0.1032 Moderately Informative Inherited
Biological Process (BP) immune system process 0.4913 Moderately Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.0002609 Informative Direct
Biological Process (BP) transcription, DNA-templated 0 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.00000000000007089 Informative Direct
Biological Process (BP) central nervous system development 0.000009168 Informative Direct
Biological Process (BP) behavior 0.00000927 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.00009352 Informative Direct
Biological Process (BP) regulation of hormone levels 0.000098 Informative Direct
Biological Process (BP) response to organic cyclic compound 0 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 0.00000000000943 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0001701 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) cellular response to hormone stimulus 0 Informative Direct
Biological Process (BP) regulation of protein localization 0.00005915 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0000355 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0000000005187 Informative Direct
Biological Process (BP) single organism reproductive process 0.0000000493 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.00002108 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0000002343 Informative Direct
Biological Process (BP) regulation of secretion 0.0003627 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) reproductive system development 0.0000004713 Informative Direct
Biological Process (BP) cellular response to lipid 0 Informative Direct
Biological Process (BP) negative regulation of cell death 0.01999 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.02169 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.009702 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.5936 Informative Inherited
Biological Process (BP) animal organ morphogenesis 0.1463 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 1 Informative Inherited
Biological Process (BP) ion homeostasis 1 Informative Inherited
Biological Process (BP) regulation of defense response 0.001573 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.02023 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.139 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) regulation of cell differentiation 0.02392 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.06823 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 1 Informative Inherited
Biological Process (BP) growth 0.3127 Informative Inherited
Biological Process (BP) response to acid chemical 0.02637 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.1371 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.6001 Informative Inherited
Biological Process (BP) embryo development 0.5262 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.001359 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) generation of neurons 0.4401 Informative Inherited
Biological Process (BP) epithelium development 0.3537 Informative Inherited
Biological Process (BP) anion transport 0.09675 Informative Inherited
Biological Process (BP) organic acid transport 0.002335 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.06976 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.6763 Informative Inherited
Biological Process (BP) cellular chemical homeostasis 1 Informative Inherited
Biological Process (BP) lipid localization 0.001329 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.2376 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.5641 Informative Inherited
Biological Process (BP) immune response 0.6595 Informative Inherited
Biological Process (BP) leukocyte activation involved in immune response 0.0004511 Highly Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.000002503 Highly Informative Direct
Biological Process (BP) brain development 0.000000003269 Highly Informative Direct
Biological Process (BP) sex differentiation 0.000001562 Highly Informative Direct
Biological Process (BP) steroid metabolic process 0.0000008878 Highly Informative Direct
Biological Process (BP) cell proliferation 0.0005488 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 0 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 0.00000000004991 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.0000008204 Highly Informative Direct
Biological Process (BP) regulation of lipid storage 0.000225 Highly Informative Direct
Biological Process (BP) monocarboxylic acid transport 0.000002377 Highly Informative Direct
Biological Process (BP) response to retinoic acid 0.00000000006563 Highly Informative Direct
Biological Process (BP) regulation of circadian rhythm 0 Highly Informative Direct
Biological Process (BP) response to estrogen 0.0000000000002594 Highly Informative Direct
Biological Process (BP) multi-multicellular organism process 0.0000006534 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-templated 0 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 0.000001257 Highly Informative Direct
Biological Process (BP) regulation of inflammatory response 0.0008692 Highly Informative Direct
Biological Process (BP) regulation of sequence-specific DNA binding transcription factor activity 0.000005675 Highly Informative Direct
Biological Process (BP) response to glucocorticoid 0.00000000000352 Highly Informative Direct
Biological Process (BP) lipid homeostasis 0.000000001119 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 0.000000007563 Highly Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 0.00009797 Highly Informative Direct
Biological Process (BP) positive regulation of lipid metabolic process 0.007443 Highly Informative Inherited
Biological Process (BP) inner ear development 0.01211 Highly Informative Inherited
Biological Process (BP) response to peptide hormone 1 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.2967 Highly Informative Inherited
Biological Process (BP) regulation of steroid biosynthetic process 0.1185 Highly Informative Inherited
Biological Process (BP) regulation of epithelial cell proliferation 0.03175 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 1 Highly Informative Inherited
Biological Process (BP) tube morphogenesis 0.6655 Highly Informative Inherited
Biological Process (BP) multicellular organismal homeostasis 0.2136 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.04653 Highly Informative Inherited
Biological Process (BP) regulation of carbohydrate biosynthetic process 0.3101 Highly Informative Inherited
Biological Process (BP) response to alcohol 1 Highly Informative Inherited
Biological Process (BP) lipid modification 0.002862 Highly Informative Inherited
Biological Process (BP) response to carbohydrate 0.8476 Highly Informative Inherited
Biological Process (BP) circadian rhythm 0.129 Highly Informative Inherited
Biological Process (BP) response to nutrient levels 0.6865 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.05546 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.5794 Highly Informative Inherited
Biological Process (BP) neuron development 0.7596 Highly Informative Inherited
Biological Process (BP) pattern specification process 1 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.5186 Highly Informative Inherited
Biological Process (BP) cellular calcium ion homeostasis 0.3435 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 1 Highly Informative Inherited
Biological Process (BP) cellular response to xenobiotic stimulus 0.04066 Highly Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.1673 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 0.7379 Highly Informative Inherited
Biological Process (BP) energy reserve metabolic process 0.001999 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0.1568 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.8198 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.02724 Moderately Informative Inherited
Molecular Function (MF) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) transcription factor activity, sequence-specific DNA binding 0 Informative Direct
Molecular Function (MF) signal transducer activity 0 Informative Direct
Molecular Function (MF) receptor binding 0.000000003251 Informative Direct
Molecular Function (MF) carboxylic acid binding 0 Informative Direct
Molecular Function (MF) protein dimerization activity 0.00000000000614 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.2513 Informative Inherited
Molecular Function (MF) transcription factor activity, transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) chromatin binding 0.00000499 Highly Informative Direct
Molecular Function (MF) steroid binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) drug binding 0.0000000006477 Highly Informative Direct
Molecular Function (MF) monocarboxylic acid binding 0 Highly Informative Direct
Molecular Function (MF) hormone binding 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.000000009337 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.0003905 Moderately Informative Direct
Cellular Component (CC) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) ribosome 0.04165 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.8737 Moderately Informative Inherited
Cellular Component (CC) neuron projection 0.01934 Informative Inherited
Cellular Component (CC) cell projection part 1 Informative Inherited
Cellular Component (CC) synapse 0.3336 Informative Inherited
Cellular Component (CC) chromosome 0.02317 Informative Inherited
Cellular Component (CC) chromatin 0.000000002027 Highly Informative Direct
Cellular Component (CC) dendrite 0.0003047 Highly Informative Direct
Cellular Component (CC) nuclear chromosome 0.3794 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 cancer0.02519Least InformativeInherited
Disease Ontology (DO)disease of metabolism0.00000007403Moderately InformativeDirect
Disease Ontology (DO)endocrine system disease0.001599Moderately InformativeInherited
Disease Ontology (DO)disease by infectious agent0.002337Moderately InformativeInherited
Disease Ontology (DO)benign neoplasm0.002886Moderately InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.006901Moderately InformativeInherited
Disease Ontology (DO)endometrial cancer0.000000019InformativeDirect
Disease Ontology (DO)overnutrition0.00000002339InformativeDirect
Disease Ontology (DO)cell type benign neoplasm0.0000517InformativeDirect
Disease Ontology (DO)alopecia0.0001405InformativeDirect
Disease Ontology (DO)viral infectious disease0.01311InformativeInherited
Disease Ontology (DO)physical disorder0.01425InformativeInherited
Disease Ontology (DO)breast carcinoma0.02372InformativeInherited
Disease Ontology (DO)endocrine gland cancer0.06585InformativeInherited
Disease Ontology (DO)lysosomal storage disease0.07395InformativeInherited
Disease Ontology (DO)organ system benign neoplasm0.2613InformativeInherited
Disease Ontology (DO)pancreas disease0.7729InformativeInherited
Disease Ontology (DO)kidney cancer0.9634InformativeInherited
Disease Ontology (DO)hypospadias0.000004721Highly InformativeDirect
Disease Ontology (DO)gallbladder disease0.00007015Highly InformativeDirect
Disease Ontology (DO)rubella0.00007848Highly InformativeDirect
Disease Ontology (DO)familial hyperlipidemia0.0001313Highly InformativeDirect
Disease Ontology (DO)endocrine pancreas disease0.000727Highly 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 system0.3042Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology1Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.00138Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.2079Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal genital system morphology0.8237Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm of the genitourinary tract0.06651InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower urinary tract0.0951InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the menstrual cycle0.118InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the penis0.2001InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the testis0.5542InformativeInherited
Phenotypic Abnormality (PA)Primary amenorrhea0.0001215Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the anterior pituitary0.01162Highly InformativeInherited
Phenotypic Abnormality (PA)Hypospadias0.0216Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.000007145Least InformativeDirect
Mammalian Phenotype (MP)growth/size/body region phenotype0.00003447Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.00006009Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.0002659Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0.00364Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.009916Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.01328Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.04304Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.00000001928Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.0000006279Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal hormone level0.0000006543Moderately InformativeDirect
Mammalian Phenotype (MP)liver/biliary system phenotype0.000003756Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.00003094Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal metabolism0.0007157Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal eye morphology0.01009Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.01012Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.01162Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal induced morbidity/mortality0.01686Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.02376Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.03357Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.03738Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.0738Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology0.08869Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.1078Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.1252Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.1671Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.2082Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.2211Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.287Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.3111Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.3211Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.3762Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.5053Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.5127Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.5194Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.6223Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.6473Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.0000007365InformativeDirect
Mammalian Phenotype (MP)abnormal phagocyte morphology0.000071InformativeDirect
Mammalian Phenotype (MP)normal phenotype0.0003181InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0004357InformativeDirect
Mammalian Phenotype (MP)abnormal lipoprotein level0.0004967InformativeDirect
Mammalian Phenotype (MP)abnormal eye development0.0007446InformativeDirect
Mammalian Phenotype (MP)abnormal angiogenesis0.003217InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary hormone level0.003985InformativeInherited
Mammalian Phenotype (MP)abnormal renal corpuscle morphology0.006996InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.007492InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.008162InformativeInherited
Mammalian Phenotype (MP)abnormal trabecular bone morphology0.009282InformativeInherited
Mammalian Phenotype (MP)abnormal compact bone morphology0.01013InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive system physiology0.01426InformativeInherited
Mammalian Phenotype (MP)abnormal intestine physiology0.01475InformativeInherited
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.01705InformativeInherited
Mammalian Phenotype (MP)abnormal gland physiology0.03228InformativeInherited
Mammalian Phenotype (MP)abnormal heart layer morphology0.04845InformativeInherited
Mammalian Phenotype (MP)abnormal germ cell morphology0.05696InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel physiology0.07366InformativeInherited
Mammalian Phenotype (MP)abnormal stomach morphology0.1248InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.1327InformativeInherited
Mammalian Phenotype (MP)abnormal white adipose tissue morphology0.1751InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.1852InformativeInherited
Mammalian Phenotype (MP)abnormal vertebral column morphology0.26InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.4209InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive gland morphology0.4995InformativeInherited
Mammalian Phenotype (MP)abnormal lung morphology0.5583InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.624InformativeInherited
Mammalian Phenotype (MP)abnormal skin appearance0.6455InformativeInherited
Mammalian Phenotype (MP)abnormal circulating leptin level0.6804InformativeInherited
Mammalian Phenotype (MP)abnormal enzyme/coenzyme activity0.8062InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.8423InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.959InformativeInherited
Mammalian Phenotype (MP)abnormal circulating testosterone level0.000000001116Highly InformativeDirect
Mammalian Phenotype (MP)absent Harderian gland0.00000007037Highly InformativeDirect
Mammalian Phenotype (MP)persistent hyperplastic primary vitreous0.0000001322Highly InformativeDirect
Mammalian Phenotype (MP)fused bronchial cartilage rings0.0000002769Highly InformativeDirect
Mammalian Phenotype (MP)abnormal sublingual gland morphology0.0000003767Highly InformativeDirect
Mammalian Phenotype (MP)abnormal Sertoli cell morphology0.0000006353Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight0.0000007762Highly InformativeDirect
Mammalian Phenotype (MP)split cervical axis0.0000008173Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland alveolus morphology0.000002971Highly InformativeDirect
Mammalian Phenotype (MP)absent fetal ductus arteriosus0.00000366Highly InformativeDirect
Mammalian Phenotype (MP)absent sclera0.00000366Highly InformativeDirect
Mammalian Phenotype (MP)decreased compact bone area0.00004219Highly InformativeDirect
Mammalian Phenotype (MP)increased trabecular bone volume0.0001077Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mesonephros morphology0.0001154Highly InformativeDirect
Mammalian Phenotype (MP)increased sensitivity to induced morbidity/mortality0.0001218Highly InformativeDirect
Mammalian Phenotype (MP)decreased ventral retina size0.0001348Highly InformativeDirect
Mammalian Phenotype (MP)abnormal stomach epithelium morphology0.0002421Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland development0.0005153Highly InformativeDirect
Mammalian Phenotype (MP)abnormal energy expenditure0.0006184Highly InformativeDirect
Mammalian Phenotype (MP)abnormal larynx morphology0.0006396Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating gonadotropin level0.0006424Highly InformativeDirect
Mammalian Phenotype (MP)abnormal response/metabolism to endogenous compounds0.0008846Highly InformativeDirect
Mammalian Phenotype (MP)decreased male germ cell number0.0009506Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cellular cholesterol metabolism0.0009543Highly InformativeDirect
Mammalian Phenotype (MP)altered susceptibility to atherosclerosis0.0009775Highly InformativeDirect
Mammalian Phenotype (MP)abnormal optic nerve morphology0.001619Highly InformativeInherited
Mammalian Phenotype (MP)abnormal renin activity0.001636Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cervical atlas morphology0.002475Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fat pad morphology0.00523Highly InformativeInherited
Mammalian Phenotype (MP)abnormal intervertebral disk morphology0.0113Highly InformativeInherited
Mammalian Phenotype (MP)abnormal circadian rhythm0.02177Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vas deferens morphology0.0229Highly InformativeInherited
Mammalian Phenotype (MP)abnormal neurocranium morphology0.02418Highly InformativeInherited
Mammalian Phenotype (MP)abnormal basicranium morphology0.02422Highly InformativeInherited
Mammalian Phenotype (MP)abnormal thymus development0.02529Highly InformativeInherited
Mammalian Phenotype (MP)abnormal basal ganglion morphology0.04467Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fat cell morphology0.0479Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cornea morphology0.05494Highly InformativeInherited
Mammalian Phenotype (MP)decreased bone mass0.06645Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vascular smooth muscle physiology0.06854Highly InformativeInherited
Mammalian Phenotype (MP)abnormal circulating insulin-like growth factor I level0.09878Highly InformativeInherited
Mammalian Phenotype (MP)abnormal artery development0.1011Highly InformativeInherited
Mammalian Phenotype (MP)abnormal ureter morphology0.1036Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.104Highly InformativeInherited
Mammalian Phenotype (MP)internal hemorrhage0.1097Highly InformativeInherited
Mammalian Phenotype (MP)abnormal thyroid hormone level0.2122Highly InformativeInherited
Mammalian Phenotype (MP)abnormal lens morphology0.2213Highly InformativeInherited
Mammalian Phenotype (MP)abnormal heart development0.2413Highly InformativeInherited
Mammalian Phenotype (MP)abnormal joint morphology0.2658Highly InformativeInherited
Mammalian Phenotype (MP)abnormal epididymis morphology0.2892Highly InformativeInherited
Mammalian Phenotype (MP)abnormal middle ear morphology0.3834Highly 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 variant0.4218Least InformativeInherited
Worm Phenotype (WP)organism behavior variant1Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant1Least InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.000003328Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant1Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant1Moderately InformativeInherited
Worm Phenotype (WP)dauer arrest variant0.1431InformativeInherited
Worm Phenotype (WP)fat content variant0.9285InformativeInherited
Worm Phenotype (WP)transgene expression reduced0.000000204Highly InformativeDirect
Worm Phenotype (WP)fat content increased0.000002133Highly InformativeDirect
Worm Phenotype (WP)hatching variant0.00003176Highly InformativeDirect
Worm Phenotype (WP)chemical hypersensitive0.00091Highly InformativeDirect
Worm Phenotype (WP)social behavior variant0.00802Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0.02256Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.04077Least InformativeInherited
Fly Anatomy (FA)multi-tissue structure0.2243Least InformativeInherited
Fly Anatomy (FA)anatomical group0.3774Least InformativeInherited
Fly Anatomy (FA)cell0.4004Least InformativeInherited
Fly Anatomy (FA)nervous system0.6228Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)multi-cell-component structure0.002787Moderately InformativeInherited
Fly Anatomy (FA)ganglion0.02699Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.09716Moderately InformativeInherited
Fly Anatomy (FA)neuron0.2845Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.3804Moderately InformativeInherited
Fly Anatomy (FA)adult head0.644Moderately InformativeInherited
Fly Anatomy (FA)synaptic neuropil block0.000008381InformativeDirect
Fly Anatomy (FA)neuroblast lineage clone0.00001437InformativeDirect
Fly Anatomy (FA)interneuron0.000407InformativeDirect
Fly Anatomy (FA)supraesophageal ganglion0.007959InformativeInherited
Fly Anatomy (FA)neuromere0.01244InformativeInherited
Fly Anatomy (FA)adult brain0.0165InformativeInherited
Fly Anatomy (FA)synaptic neuropil domain0.06469InformativeInherited
Fly Anatomy (FA)labral segment0.08853InformativeInherited
Fly Anatomy (FA)adult MBp lineage neuron0.0000004043Highly InformativeDirect
Fly Anatomy (FA)mushroom body intrinsic neuron0.0000004809Highly InformativeDirect
Fly Anatomy (FA)supraesophageal ganglion neuron0.000005666Highly InformativeDirect
Fly Anatomy (FA)mushroom body medial lobe0.01107Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)nervous system1Least InformativeInherited
Xenopus ANatomical entity (XAN)head1Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.7503Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)spinal cord0.00009131InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.0003949InformativeDirect
Xenopus ANatomical entity (XAN)forebrain0.02085InformativeInherited
Xenopus ANatomical entity (XAN)hypothalamus0.0003641Highly InformativeDirect
Xenopus DEvelopment stage (XDE)embryonic stage0.0001754Least InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage0.0002442Least InformativeDirect

Document: XA annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)antineoplastic and immunomodulating agents0.0006752Least InformativeDirect
Drugbank ATC_code (DB)cardiovascular system0.003271Least InformativeInherited
Drugbank ATC_code (DB)alimentary tract and metabolism0.01496Least InformativeInherited
Drugbank ATC_code (DB)sensory organs0.6326Least InformativeInherited
Drugbank ATC_code (DB)systemic hormonal preparations, excl. sex hormones and insulins0.000002848Moderately InformativeDirect
Drugbank ATC_code (DB)dermatologicals0.00005218Moderately InformativeDirect
Drugbank ATC_code (DB)genito urinary system and sex hormones0.00009059Moderately InformativeDirect
Drugbank ATC_code (DB)other antineoplastic agents0.003151Moderately InformativeInherited
Drugbank ATC_code (DB)musculo-skeletal system0.01395Moderately InformativeInherited
Drugbank ATC_code (DB)drugs used in diabetes0.03175Moderately InformativeInherited
Drugbank ATC_code (DB)nasal preparations0.03447Moderately InformativeInherited
Drugbank ATC_code (DB)antiinflammatory and antirheumatic products, non-steroids0.0001597InformativeDirect
Drugbank ATC_code (DB)aldosterone antagonists0.0001844InformativeDirect
Drugbank ATC_code (DB)corticosteroids for systemic use0.0002448InformativeDirect
Drugbank ATC_code (DB)retinoids for topical use in acne0.006988InformativeInherited
Drugbank ATC_code (DB)drugs for obstructive airway diseases0.03635InformativeInherited
Drugbank ATC_code (DB)other dermatological preparations1InformativeInherited
Drugbank ATC_code (DB)etretinate0.0000000001365Highly InformativeDirect
Drugbank ATC_code (DB)alitretinoin0.0000000001365Highly InformativeDirect
Drugbank ATC_code (DB)estrogens0.00000007405Highly InformativeDirect
Drugbank ATC_code (DB)bezafibrate0.000001464Highly InformativeDirect
Drugbank ATC_code (DB)alitretinoin0.000002981Highly InformativeDirect
Drugbank ATC_code (DB)fluticasone0.000004058Highly InformativeDirect
Drugbank ATC_code (DB)3-oxoandrosten (4) derivatives0.000004058Highly InformativeDirect
Drugbank ATC_code (DB)glucocorticoids0.000004058Highly InformativeDirect
Drugbank ATC_code (DB)thiazolidinediones0.00001757Highly InformativeDirect
Drugbank ATC_code (DB)antiinflammatory agents0.00006319Highly InformativeDirect
Drugbank ATC_code (DB)adapalene0.0002385Highly InformativeDirect
Drugbank ATC_code (DB)bexarotene0.0007488Highly InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processBiological rhythms0InformativeDirect
Biological processSensory transduction0.02158InformativeInherited
Biological processVision0.0000006109Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0.00000007912Moderately InformativeDirect
Coding sequence diversityAlternative splicing0.000002032Least InformativeDirect
Coding sequence diversityAlternative promoter usage0.0000008828Moderately InformativeDirect
DiseaseDisease mutation0.0006555Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionLipid-binding0Moderately InformativeDirect
Molecular functionSteroid-binding0Highly InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000001272Moderately InformativeDirect
Post-translational modificationChromatin regulator0.00000001956InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.000009078Least InformativeDirect
Post-translational modificationPalmitate0Moderately InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationMethylation0.00000002323Moderately 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) · Zebrafish Anatomy (ZA) · 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) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]