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 (165) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 8,270 10,494 148
Proteins 8,149 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)regulation of cellular process0.0000000000000032510.000000001593Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.000038890Least InformativeDirect
Biological Process (BP)developmental process0.0007840Least InformativeDirect
Biological Process (BP)localization0.21720.785Least InformativeInherited
Biological Process (BP)single-organism cellular process0.052280.000000000000003707Least InformativeInherited
Biological Process (BP)response to stimulus0.085830Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0020350Least InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process00Moderately InformativeDirect
Biological Process (BP)nervous system development0.004540.9332Moderately InformativeInherited
Biological Process (BP)signal transduction0.69530Moderately InformativeInherited
Biological Process (BP)organ development0.026430.00000000000008363Moderately InformativeInherited
Biological Process (BP)cell differentiation0.000079660.002244Moderately InformativeInherited
Biological Process (BP)localization of cell0.0000063720.00000136InformativeDirect
Biological Process (BP)locomotion0.000079140.00008005InformativeDirect
Biological Process (BP)cellular component movement0.00045640.423InformativeInherited
Biological Process (BP)central nervous system development0.0002010.001298InformativeInherited
Biological Process (BP)generation of neurons0.00000014640.354InformativeInherited
Biological Process (BP)negative regulation of sequence-specific DNA binding transcription factor activity0.000013710.0000002115Highly InformativeDirect
Biological Process (BP)telencephalon development0.000084120.0003226Highly InformativeDirect
Molecular Function (MF)binding0.000000000011040Least InformativeDirect
Molecular Function (MF)nucleic acid binding0.00016650.00001483Moderately InformativeDirect
Molecular Function (MF)DNA binding00InformativeDirect
Molecular Function (MF)nucleic acid binding transcription factor activity6.814e-160InformativeDirect
Molecular Function (MF)receptor activity0.0020710InformativeInherited
Molecular Function (MF)molecular transducer activity0.0029030InformativeInherited
Molecular Function (MF)transcription factor binding transcription factor activity0.00000031270Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.000054490Least 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) regulation of cellular process 0.000000001593 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000000000000003707 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.0000000004595 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.000000001349 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000000005349 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00002564 Least Informative Direct
Biological Process (BP) localization 0.785 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.001509 Least Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) organ development 0.00000000000008363 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0000000000002656 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.000002028 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0001155 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.00000000000003082 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.00000000001286 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.00000001339 Moderately Informative Direct
Biological Process (BP) signal transduction 0 Moderately Informative Direct
Biological Process (BP) reproductive process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.000000005473 Moderately Informative Direct
Biological Process (BP) tissue development 0.0000001137 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.000000795 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.8839 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.04215 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.05027 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.5254 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3315 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.002244 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.9332 Moderately Informative Inherited
Biological Process (BP) ion transport 0.5113 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.262 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.01071 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.3311 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.1801 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) localization of cell 0.00000136 Informative Direct
Biological Process (BP) locomotion 0.00008005 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.0006516 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 0.00001249 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.00000007848 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0 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) multi-multicellular organism process 0 Informative Direct
Biological Process (BP) gland development 0 Informative Direct
Biological Process (BP) response to lipid 0 Informative Direct
Biological Process (BP) transcription, DNA-templated 0 Informative Direct
Biological Process (BP) single organism reproductive process 0 Informative Direct
Biological Process (BP) regulation of apoptotic process 0 Informative Direct
Biological Process (BP) reproductive structure development 0.00000000000003903 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 0.00000000000008363 Informative Direct
Biological Process (BP) tube development 0.000000009569 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.00000007843 Informative Direct
Biological Process (BP) cell proliferation 0.0000002594 Informative Direct
Biological Process (BP) growth 0.000001013 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.0000125 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0000382 Informative Direct
Biological Process (BP) lipid localization 0.00004822 Informative Direct
Biological Process (BP) response to acid chemical 0.00008013 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0001449 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0001892 Informative Direct
Biological Process (BP) organic acid transport 0.000328 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0005341 Informative Direct
Biological Process (BP) regulation of response to wounding 0.0007443 Informative Direct
Biological Process (BP) cellular response to hormone stimulus 0.0009554 Informative Direct
Biological Process (BP) negative regulation of cell death 0.1016 Informative Inherited
Biological Process (BP) regulation of protein localization 0.02251 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.2565 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) regulation of secretion 0.01808 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.8781 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) cardiovascular system development 0.6969 Informative Inherited
Biological Process (BP) muscle structure development 0.2089 Informative Inherited
Biological Process (BP) cellular component movement 0.423 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.5471 Informative Inherited
Biological Process (BP) embryonic organ development 0.005268 Informative Inherited
Biological Process (BP) sensory organ development 0.3811 Informative Inherited
Biological Process (BP) anion transport 0.04449 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.43 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.3524 Informative Inherited
Biological Process (BP) regulation of cell activation 1 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.07203 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.415 Informative Inherited
Biological Process (BP) response to nutrient levels 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.001156 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) cell projection organization 1 Informative Inherited
Biological Process (BP) central nervous system development 0.001298 Informative Inherited
Biological Process (BP) epithelium development 0.1897 Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.01622 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.4668 Informative Inherited
Biological Process (BP) sexual reproduction 1 Informative Inherited
Biological Process (BP) cellular chemical homeostasis 0.8785 Informative Inherited
Biological Process (BP) cation homeostasis 0.7675 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 1 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.8718 Informative Inherited
Biological Process (BP) energy derivation by oxidation of organic compounds 0.7683 Informative Inherited
Biological Process (BP) organ morphogenesis 0.1005 Informative Inherited
Biological Process (BP) leukocyte activation 0.2117 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.2391 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.09502 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) generation of neurons 0.354 Informative Inherited
Biological Process (BP) multicellular organismal homeostasis 0.6057 Informative Inherited
Biological Process (BP) negative regulation of sequence-specific DNA binding transcription factor activity 0.0000002115 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0003226 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-templated 0.000000000005572 Highly Informative Direct
Biological Process (BP) female pregnancy 0 Highly Informative Direct
Biological Process (BP) ovulation cycle process 0 Highly Informative Direct
Biological Process (BP) regulation of circadian rhythm 0 Highly Informative Direct
Biological Process (BP) gonad development 0 Highly Informative Direct
Biological Process (BP) placenta development 0 Highly Informative Direct
Biological Process (BP) mammary gland epithelium development 0.000000000000007248 Highly Informative Direct
Biological Process (BP) endocrine system development 0.0000000000000325 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 0.000000000759 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.000000001131 Highly Informative Direct
Biological Process (BP) monocarboxylic acid transport 0.00000001588 Highly Informative Direct
Biological Process (BP) multi-organism behavior 0.0000001252 Highly Informative Direct
Biological Process (BP) cellular response to steroid hormone stimulus 0.0000001521 Highly Informative Direct
Biological Process (BP) mammary gland alveolus development 0.0000004804 Highly Informative Direct
Biological Process (BP) epithelial cell development 0.0000004897 Highly Informative Direct
Biological Process (BP) xenobiotic metabolic process 0.0000009724 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.000003096 Highly Informative Direct
Biological Process (BP) cardiocyte differentiation 0.00001367 Highly Informative Direct
Biological Process (BP) alpha-beta T cell activation 0.00001659 Highly Informative Direct
Biological Process (BP) regulation of lipid storage 0.00004335 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 0.00005543 Highly Informative Direct
Biological Process (BP) response to alcohol 0.0001246 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 0.0001625 Highly Informative Direct
Biological Process (BP) response to hypoxia 0.0001908 Highly Informative Direct
Biological Process (BP) cellular response to metal ion 0.000251 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 0.000344 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0003766 Highly Informative Direct
Biological Process (BP) regulation of nitric oxide biosynthetic process 0.0006708 Highly Informative Direct
Biological Process (BP) energy reserve metabolic process 0.0009323 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 0.004039 Highly Informative Inherited
Biological Process (BP) regulation of phospholipase activity 0.1387 Highly Informative Inherited
Biological Process (BP) regulation of hormone secretion 0.001284 Highly Informative Inherited
Biological Process (BP) cellular response to acid chemical 0.2423 Highly Informative Inherited
Biological Process (BP) regulation of steroid biosynthetic process 0.008912 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.3868 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.0177 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.06134 Highly Informative Inherited
Biological Process (BP) respiratory system development 0.4952 Highly Informative Inherited
Biological Process (BP) monovalent inorganic cation homeostasis 0.2149 Highly Informative Inherited
Biological Process (BP) cardiac muscle tissue development 0.001884 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.1224 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.8569 Highly Informative Inherited
Biological Process (BP) positive regulation of lipid metabolic process 0.01029 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.1473 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.2411 Highly Informative Inherited
Biological Process (BP) lipid modification 0.04492 Highly Informative Inherited
Biological Process (BP) response to carbohydrate 0.6245 Highly Informative Inherited
Biological Process (BP) circadian rhythm 1 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.1606 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.9023 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.3701 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.888 Highly Informative Inherited
Biological Process (BP) pattern specification process 1 Highly Informative Inherited
Biological Process (BP) neural tube development 0.01974 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 1 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 1 Highly Informative Inherited
Biological Process (BP) cellular calcium ion homeostasis 0.3276 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.02061 Highly Informative Inherited
Biological Process (BP) regulation of translation 1 Highly Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.3397 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.007869 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.5486 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.8585 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.00354 Highly Informative Inherited
Biological Process (BP) columnar/cuboidal epithelial cell differentiation 0.9258 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 1 Highly Informative Inherited
Biological Process (BP) developmental growth 0.008128 Highly Informative Inherited
Biological Process (BP) in utero embryonic development 0.2967 Highly Informative Inherited
Biological Process (BP) development of primary female sexual characteristics 0.01488 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0.00001483 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.8802 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.0413 Moderately Informative Inherited
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) lipid binding 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 0.000000000002325 Informative Direct
Molecular Function (MF) protein dimerization activity 0.0000000009644 Informative Direct
Molecular Function (MF) receptor binding 0.00000002125 Informative Direct
Molecular Function (MF) chromatin binding 0.0000001749 Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.00000004482 Highly Informative Direct
Molecular Function (MF) monocarboxylic acid binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) hormone binding 0 Highly Informative Direct
Molecular Function (MF) steroid binding 0 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) drug binding 0.000000000312 Highly Informative Direct
Molecular Function (MF) alcohol binding 0.0002005 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 1 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.3911 Moderately Informative Inherited
Cellular Component (CC) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 1 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.000005205 Informative Direct
Cellular Component (CC) neuron projection 0.002324 Informative Inherited
Cellular Component (CC) chromatin 0.00000000004308 Highly Informative Direct
Cellular Component (CC) dendrite 0.00002399 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.0004326 Highly Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.04873Least InformativeInherited
Disease Ontology (DO)disease of metabolism0.0000002145Moderately InformativeDirect
Disease Ontology (DO)endocrine system disease0.001942Moderately InformativeInherited
Disease Ontology (DO)benign neoplasm0.01817Moderately InformativeInherited
Disease Ontology (DO)overnutrition0.00000001933InformativeDirect
Disease Ontology (DO)endometrial cancer0.000000237InformativeDirect
Disease Ontology (DO)familial hyperlipidemia0.0001313InformativeDirect
Disease Ontology (DO)alopecia0.0001898InformativeDirect
Disease Ontology (DO)cell type benign neoplasm0.0009134InformativeDirect
Disease Ontology (DO)physical disorder0.01304InformativeInherited
Disease Ontology (DO)viral infectious disease0.01955InformativeInherited
Disease Ontology (DO)breast carcinoma0.0398InformativeInherited
Disease Ontology (DO)lysosomal storage disease0.07142InformativeInherited
Disease Ontology (DO)thyroid gland disease0.1589InformativeInherited
Disease Ontology (DO)organ system benign neoplasm0.2714InformativeInherited
Disease Ontology (DO)pancreas disease0.6982InformativeInherited
Disease Ontology (DO)cholelithiasis0.0000008916Highly InformativeDirect
Disease Ontology (DO)hypospadias0.00000247Highly InformativeDirect
Disease Ontology (DO)adenoma0.00004058Highly InformativeDirect
Disease Ontology (DO)thoracic disease0.0006819Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormal genital system morphology0.72Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of female internal genitalia0.1134InformativeInherited
Phenotypic Abnormality (PA)Puberty and gonadal disorders0.5813InformativeInherited
Phenotypic Abnormality (PA)Primary amenorrhea0.0007825Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body phenotype0.0001245Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.0007354Least InformativeDirect
Mammalian Phenotype (MP)cardiovascular system phenotype0.001459Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.003552Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.00483Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.009739Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.01339Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.02087Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.00000004476Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.0000005132Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal hormone level0.00001651Moderately InformativeDirect
Mammalian Phenotype (MP)liver/biliary system phenotype0.00002464Moderately InformativeDirect
Mammalian Phenotype (MP)muscle phenotype0.001228Moderately InformativeInherited
Mammalian Phenotype (MP)digestive/alimentary phenotype0.001498Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.003343Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.01538Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.03411Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.03411Moderately InformativeInherited
Mammalian Phenotype (MP)renal/urinary system phenotype0.06684Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.07802Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.1115Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.1496Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.175Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.2209Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.3925Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.4487Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.4687Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.5593Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.6005Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal female genitalia morphology0.00000001434InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.000002468InformativeDirect
Mammalian Phenotype (MP)abnormal phagocyte morphology0.0001567InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology0.002319InformativeInherited
Mammalian Phenotype (MP)abnormal eye development0.002492InformativeInherited
Mammalian Phenotype (MP)abnormal angiogenesis0.004124InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary hormone level0.004895InformativeInherited
Mammalian Phenotype (MP)abnormal renal glomerulus morphology0.006318InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.00784InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.02346InformativeInherited
Mammalian Phenotype (MP)abnormal female reproductive system physiology0.02592InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel physiology0.04021InformativeInherited
Mammalian Phenotype (MP)abnormal heart layer morphology0.06123InformativeInherited
Mammalian Phenotype (MP)abnormal bone structure0.06164InformativeInherited
Mammalian Phenotype (MP)abnormal stomach morphology0.09848InformativeInherited
Mammalian Phenotype (MP)abnormal mammary gland morphology0.1076InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial development0.1147InformativeInherited
Mammalian Phenotype (MP)abnormal cranium morphology0.2025InformativeInherited
Mammalian Phenotype (MP)abnormal white adipose tissue morphology0.2033InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.2216InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.225InformativeInherited
Mammalian Phenotype (MP)abnormal vertebrae morphology0.3354InformativeInherited
Mammalian Phenotype (MP)abnormal skin appearance0.5014InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.5989InformativeInherited
Mammalian Phenotype (MP)abnormal sex determination0.6288InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.6972InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.9867InformativeInherited
Mammalian Phenotype (MP)abnormal circulating testosterone level0.00000003163Highly InformativeDirect
Mammalian Phenotype (MP)persistent hyperplastic primary vitreous0.0000002396Highly InformativeDirect
Mammalian Phenotype (MP)abnormal sublingual gland morphology0.0000004189Highly InformativeDirect
Mammalian Phenotype (MP)rudimentary Mullerian ducts0.000001293Highly InformativeDirect
Mammalian Phenotype (MP)split cervical axis0.000001293Highly InformativeDirect
Mammalian Phenotype (MP)absent sclera0.000001293Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland alveolus morphology0.000001965Highly InformativeDirect
Mammalian Phenotype (MP)absent fetal ductus arteriosus0.000002945Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cricoid cartilage morphology0.000005871Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight0.000007023Highly InformativeDirect
Mammalian Phenotype (MP)decreased compact bone area0.0000161Highly InformativeDirect
Mammalian Phenotype (MP)increased renin activity0.00004886Highly InformativeDirect
Mammalian Phenotype (MP)abnormal pharyngeal arch artery morphology0.00005381Highly InformativeDirect
Mammalian Phenotype (MP)ectopic ureter0.00007428Highly InformativeDirect
Mammalian Phenotype (MP)decreased vertical activity0.0002162Highly InformativeDirect
Mammalian Phenotype (MP)abnormal stomach epithelium morphology0.0002624Highly InformativeDirect
Mammalian Phenotype (MP)coloboma0.0002693Highly InformativeDirect
Mammalian Phenotype (MP)abnormal abdominal fat pad morphology0.0004642Highly InformativeDirect
Mammalian Phenotype (MP)abnormal response/metabolism to endogenous compounds0.0006592Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating aldosterone level0.000824Highly InformativeDirect
Mammalian Phenotype (MP)increased sensitivity to induced morbidity/mortality0.0008244Highly InformativeDirect
Mammalian Phenotype (MP)abnormal myocardium layer morphology0.002627Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cervical atlas morphology0.003448Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to atherosclerosis0.008284Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cranial nerve morphology0.01328Highly InformativeInherited
Mammalian Phenotype (MP)abnormal lens morphology0.01908Highly InformativeInherited
Mammalian Phenotype (MP)abnormal thymus development0.02004Highly InformativeInherited
Mammalian Phenotype (MP)abnormal neurocranium morphology0.02132Highly InformativeInherited
Mammalian Phenotype (MP)abnormal basal ganglion morphology0.03275Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vascular smooth muscle physiology0.03842Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid aperture0.04323Highly InformativeInherited
Mammalian Phenotype (MP)abnormal secondary sex determination0.04657Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fat cell morphology0.04723Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cornea morphology0.05547Highly InformativeInherited
Mammalian Phenotype (MP)abnormal gland physiology0.05926Highly InformativeInherited
Mammalian Phenotype (MP)decreased bone mass0.0666Highly InformativeInherited
Mammalian Phenotype (MP)abnormal circulating insulin-like growth factor I level0.07934Highly InformativeInherited
Mammalian Phenotype (MP)abnormal midbrain morphology0.08348Highly InformativeInherited
Mammalian Phenotype (MP)abnormal circadian period0.1067Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cardiac muscle tissue morphology0.1595Highly InformativeInherited
Mammalian Phenotype (MP)internal hemorrhage0.1606Highly InformativeInherited
Mammalian Phenotype (MP)fused joints0.2216Highly InformativeInherited
Mammalian Phenotype (MP)abnormal heart development0.2332Highly InformativeInherited
Mammalian Phenotype (MP)abnormal middle ear morphology0.4199Highly 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 variant0.00000813InformativeDirect
Worm Phenotype (WP)failure to hatch0.00000001132Highly InformativeDirect
Worm Phenotype (WP)fat content increased0.00001174Highly InformativeDirect
Worm Phenotype (WP)dauer arrest variant0.0156Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0.1205Least InformativeInherited
Fly Anatomy (FA)anatomical group0.157Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.2322Least InformativeInherited
Fly Anatomy (FA)multi-tissue structure0.2628Least InformativeInherited
Fly Anatomy (FA)adult0.3169Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)multi-cell-component structure0.009081Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.04974Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.2344Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.2789Moderately InformativeInherited
Fly Anatomy (FA)adult head0.3234Moderately InformativeInherited
Fly Anatomy (FA)gland0.0008415InformativeDirect
Fly Anatomy (FA)synaptic neuropil0.004595InformativeInherited
Fly Anatomy (FA)neuromere0.01696InformativeInherited
Fly Anatomy (FA)adult procephalic segment0.02457InformativeInherited
Fly Anatomy (FA)adult brain0.03291InformativeInherited
Fly Anatomy (FA)supraesophageal ganglion0.07246InformativeInherited
Fly Anatomy (FA)labral segment0.1176InformativeInherited
Fly Anatomy (FA)adult mushroom body0.2206Highly InformativeInherited

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)portion of tissue0.8816Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.9214Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.4649Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.9402Moderately InformativeInherited
Xenopus ANatomical entity (XAN)cranial placode0.1522InformativeInherited
Xenopus ANatomical entity (XAN)involuted ventral mesoderm0.0007551Highly InformativeDirect
Xenopus ANatomical entity (XAN)lateral line system0.0007551Highly InformativeDirect

Document: XA annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)cardiovascular system0.005371Least InformativeInherited
Drugbank ATC_code (DB)alimentary tract and metabolism0.1121Least InformativeInherited
Drugbank ATC_code (DB)systemic hormonal preparations, excl. sex hormones and insulins0.00000001493Moderately InformativeDirect
Drugbank ATC_code (DB)genito urinary system and sex hormones0.00007012Moderately InformativeDirect
Drugbank ATC_code (DB)musculo-skeletal system0.02349Moderately InformativeInherited
Drugbank ATC_code (DB)drugs used in diabetes0.02984Moderately InformativeInherited
Drugbank ATC_code (DB)nasal preparations0.07831Moderately InformativeInherited
Drugbank ATC_code (DB)antineoplastic agents0.7423Moderately InformativeInherited
Drugbank ATC_code (DB)spironolactone0.0001572InformativeDirect
Drugbank ATC_code (DB)antiinflammatory and antirheumatic products, non-steroids0.000172InformativeDirect
Drugbank ATC_code (DB)other antineoplastic agents0.0005335InformativeDirect
Drugbank ATC_code (DB)retinoids for topical use in acne0.01377InformativeInherited
Drugbank ATC_code (DB)drugs for obstructive airway diseases0.03998InformativeInherited
Drugbank ATC_code (DB)lipid modifying agents, plain1InformativeInherited
Drugbank ATC_code (DB)other dermatological preparations1InformativeInherited
Drugbank ATC_code (DB)etretinate0.0000000001068Highly InformativeDirect
Drugbank ATC_code (DB)alitretinoin0.0000000001068Highly InformativeDirect
Drugbank ATC_code (DB)bezafibrate0.000001253Highly InformativeDirect
Drugbank ATC_code (DB)fluticasone0.000003568Highly InformativeDirect
Drugbank ATC_code (DB)3-oxoandrosten (4) derivatives0.000003568Highly InformativeDirect
Drugbank ATC_code (DB)glucocorticoids0.000003568Highly InformativeDirect
Drugbank ATC_code (DB)thiazolidinediones0.00001536Highly InformativeDirect
Drugbank ATC_code (DB)alitretinoin0.00004021Highly InformativeDirect
Drugbank ATC_code (DB)adapalene0.000237Highly 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 transduction0.02164InformativeInherited
Biological processVision0.0000006118Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing0.000003157Least InformativeDirect
Coding sequence diversityAlternative promoter usage0.00002519Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionLipid-binding0InformativeDirect
Molecular functionSteroid-binding0Highly InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000002489Moderately InformativeDirect
Post-translational modificationChromatin regulator0.00000001705InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0001222Least 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 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 Anatomy (FA) · Xenopus Anatomy (XA) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]