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 process1.688e-152.337e-10Least InformativeDirect
Biological Process (BP)regulation of metabolic process2.184e-050Least InformativeDirect
Biological Process (BP)developmental process0.00078060Least InformativeDirect
Biological Process (BP)single-organism cellular process0.0031840Least InformativeInherited
Biological Process (BP)response to stimulus0.087420Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0024940Least InformativeInherited
Biological Process (BP)localization0.19950.7058Least InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process00Moderately InformativeDirect
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)signal transduction0.72020Moderately InformativeInherited
Biological Process (BP)organ development0.028521.778e-14Moderately InformativeInherited
Biological Process (BP)nervous system development0.0041040.8839Moderately InformativeInherited
Biological Process (BP)cell differentiation7.353e-050.002273Moderately InformativeInherited
Biological Process (BP)localization of cell5.878e-061.16e-06InformativeDirect
Biological Process (BP)locomotion7.622e-058.104e-05InformativeDirect
Biological Process (BP)central nervous system development0.00018240.0009492InformativeDirect
Biological Process (BP)cellular component movement0.0014920.6278InformativeInherited
Biological Process (BP)generation of neurons1.403e-070.3481InformativeInherited
Biological Process (BP)negative regulation of sequence-specific DNA binding transcription factor activity2.557e-057.175e-07Highly InformativeDirect
Biological Process (BP)telencephalon development7.384e-050.00021Highly InformativeDirect
Molecular Function (MF)binding1.007e-110Least InformativeDirect
Molecular Function (MF)nucleic acid binding0.00017021.446e-07Moderately InformativeDirect
Molecular Function (MF)DNA binding00InformativeDirect
Molecular Function (MF)nucleic acid binding transcription factor activity6.761e-160InformativeDirect
Molecular Function (MF)receptor activity0.00018860InformativeDirect
Molecular Function (MF)molecular transducer activity0.00028930InformativeDirect
Molecular Function (MF)sequence-specific DNA binding transcription factor activity00Highly InformativeDirect
Molecular Function (MF)transcription factor binding transcription factor activity3.113e-070Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle7.267e-050Least 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 2.337e-10 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 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) biosynthetic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 5.866e-10 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 2.42e-09 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 2.594e-05 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1314 Least Informative Inherited
Biological Process (BP) localization 0.7058 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.00125 Least Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
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) negative regulation of metabolic process 1.519e-09 Moderately Informative Direct
Biological Process (BP) organ development 1.778e-14 Moderately Informative Direct
Biological Process (BP) multi-organism process 1.953e-14 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 4.879e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.264e-14 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 1.364e-08 Moderately Informative Direct
Biological Process (BP) signal transduction 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) reproduction 0 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 3.522e-08 Moderately Informative Direct
Biological Process (BP) response to organic substance 6.318e-07 Moderately Informative Direct
Biological Process (BP) tissue development 0.0004211 Moderately Informative Direct
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.8835 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.04405 Moderately Informative Inherited
Biological Process (BP) ion transport 0.3618 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.9376 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.04085 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.8839 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.3257 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.6101 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.003456 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.002273 Moderately Informative Inherited
Biological Process (BP) localization of cell 1.16e-06 Informative Direct
Biological Process (BP) locomotion 8.104e-05 Informative Direct
Biological Process (BP) central nervous system development 0.0009492 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 8.802e-05 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 5.445e-08 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0 Informative Direct
Biological Process (BP) multi-multicellular organism process 0 Informative Direct
Biological Process (BP) response to lipid 0 Informative Direct
Biological Process (BP) gland development 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 3.836e-13 Informative Direct
Biological Process (BP) single organism reproductive process 6.437e-09 Informative Direct
Biological Process (BP) tube development 4.145e-08 Informative Direct
Biological Process (BP) regulation of cell proliferation 9.089e-08 Informative Direct
Biological Process (BP) growth 1.098e-06 Informative Direct
Biological Process (BP) developmental process involved in reproduction 2.699e-06 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 5.013e-06 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 5.384e-06 Informative Direct
Biological Process (BP) lipid localization 4.174e-05 Informative Direct
Biological Process (BP) response to organic cyclic compound 6.644e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0001363 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0002547 Informative Direct
Biological Process (BP) organic acid transport 0.0003126 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0009148 Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 0.0427 Informative Inherited
Biological Process (BP) regulation of secretion 0.01826 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 1 Informative Inherited
Biological Process (BP) leukocyte activation 0.21 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.2337 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.4133 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) regulation of protein localization 0.02125 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.8671 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.09243 Informative Inherited
Biological Process (BP) reproductive system development 0.001281 Informative Inherited
Biological Process (BP) epithelium development 0.08323 Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.01466 Informative Inherited
Biological Process (BP) muscle tissue development 0.4817 Informative Inherited
Biological Process (BP) cation homeostasis 0.7766 Informative Inherited
Biological Process (BP) muscle structure development 0.3598 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.005475 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.5301 Informative Inherited
Biological Process (BP) embryonic organ development 0.00467 Informative Inherited
Biological Process (BP) sensory organ development 0.3742 Informative Inherited
Biological Process (BP) anion transport 0.03741 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.3301 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.2522 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 1 Informative Inherited
Biological Process (BP) regulation of cell activation 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.5645 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.1301 Informative Inherited
Biological Process (BP) response to nutrient levels 1 Informative Inherited
Biological Process (BP) regulation of system process 0.2236 Informative Inherited
Biological Process (BP) regulation of nervous system development 1 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 0.3481 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 1 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.08692 Informative Inherited
Biological Process (BP) sexual reproduction 1 Informative Inherited
Biological Process (BP) cellular chemical homeostasis 0.9213 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.4798 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.8836 Informative Inherited
Biological Process (BP) energy derivation by oxidation of organic compounds 0.1892 Informative Inherited
Biological Process (BP) cardiovascular system development 0.683 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.0945 Informative Inherited
Biological Process (BP) cellular component movement 0.6278 Informative Inherited
Biological Process (BP) negative regulation of sequence-specific DNA binding transcription factor activity 7.175e-07 Highly Informative Direct
Biological Process (BP) telencephalon development 0.00021 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 1.333e-13 Highly Informative Direct
Biological Process (BP) mammary gland epithelium development 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) ovulation cycle process 0 Highly Informative Direct
Biological Process (BP) regulation of circadian rhythm 0 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 1.938e-15 Highly Informative Direct
Biological Process (BP) endocrine system development 2.793e-14 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 2.99e-09 Highly Informative Direct
Biological Process (BP) monocarboxylic acid transport 1.504e-08 Highly Informative Direct
Biological Process (BP) cellular response to steroid hormone stimulus 6.61e-08 Highly Informative Direct
Biological Process (BP) epithelial cell development 2.448e-07 Highly Informative Direct
Biological Process (BP) mammary gland alveolus development 3.642e-07 Highly Informative Direct
Biological Process (BP) xenobiotic metabolic process 1.085e-06 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 8.358e-06 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 1.065e-05 Highly Informative Direct
Biological Process (BP) cardiocyte differentiation 1.195e-05 Highly Informative Direct
Biological Process (BP) alpha-beta T cell activation 1.776e-05 Highly Informative Direct
Biological Process (BP) regulation of lipid storage 4.87e-05 Highly Informative Direct
Biological Process (BP) response to alcohol 0.0001185 Highly Informative Direct
Biological Process (BP) response to hypoxia 0.0001471 Highly Informative Direct
Biological Process (BP) female pregnancy 0.0001658 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 0.0001762 Highly Informative Direct
Biological Process (BP) cellular response to metal ion 0.0002399 Highly Informative Direct
Biological Process (BP) cardiac muscle tissue development 0.0003129 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 0.0003387 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0003576 Highly Informative Direct
Biological Process (BP) multi-organism behavior 0.0004351 Highly Informative Direct
Biological Process (BP) regulation of nitric oxide biosynthetic process 0.0007321 Highly Informative Direct
Biological Process (BP) energy reserve metabolic process 0.000935 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 0.00119 Highly Informative Inherited
Biological Process (BP) regulation of hormone secretion 0.001755 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.003589 Highly Informative Inherited
Biological Process (BP) developmental growth 0.006442 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.3833 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.0491 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.0637 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.008879 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.6658 Highly Informative Inherited
Biological Process (BP) respiratory system development 0.4832 Highly Informative Inherited
Biological Process (BP) regulation of behavior 0.2579 Highly Informative Inherited
Biological Process (BP) circadian rhythm 1 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.1225 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.862 Highly Informative Inherited
Biological Process (BP) positive regulation of lipid metabolic process 0.04073 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.3592 Highly Informative Inherited
Biological Process (BP) lipid modification 0.04525 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.01013 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) regulation of steroid biosynthetic process 0.008894 Highly Informative Inherited
Biological Process (BP) regulation of ion homeostasis 1 Highly Informative Inherited
Biological Process (BP) development of primary female sexual characteristics 0.03017 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.7933 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 0.4686 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.8941 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.9989 Highly Informative Inherited
Biological Process (BP) regulation of phospholipase activity 0.1386 Highly Informative Inherited
Biological Process (BP) response to carbohydrate stimulus 0.6216 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 1 Highly Informative Inherited
Biological Process (BP) cellular calcium ion homeostasis 0.2741 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.01968 Highly Informative Inherited
Biological Process (BP) monovalent inorganic cation homeostasis 0.2017 Highly Informative Inherited
Biological Process (BP) regulation of translation 1 Highly Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.3395 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.8609 Highly Informative Inherited
Biological Process (BP) neural tube development 0.01602 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 1 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) nucleic acid binding 1.446e-07 Moderately Informative Direct
Molecular Function (MF) anion binding 0.03995 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 2.073e-12 Informative Direct
Molecular Function (MF) protein dimerization activity 9.795e-10 Informative Direct
Molecular Function (MF) receptor binding 2.259e-08 Informative Direct
Molecular Function (MF) chromatin binding 1.13e-07 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) steroid binding 0 Highly Informative Direct
Molecular Function (MF) hormone binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) monocarboxylic acid binding 0 Highly Informative Direct
Molecular Function (MF) drug binding 2.795e-10 Highly Informative Direct
Molecular Function (MF) alcohol binding 9.187e-07 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) 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 non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0.9938 Moderately Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 1 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.2554 Moderately Informative Inherited
Cellular Component (CC) chromosome 1.035e-05 Informative Direct
Cellular Component (CC) neuron projection 0.002278 Informative Inherited
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) chromatin 3.946e-11 Highly Informative Direct
Cellular Component (CC) dendrite 0.0001315 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.001321 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 cancer0.04873Least InformativeInherited
Disease Ontology (DO)disease of metabolism2.145e-07Moderately InformativeDirect
Disease Ontology (DO)endocrine system disease0.001942Moderately InformativeInherited
Disease Ontology (DO)benign neoplasm0.01817Moderately InformativeInherited
Disease Ontology (DO)overnutrition1.933e-08InformativeDirect
Disease Ontology (DO)endometrial cancer2.37e-07InformativeDirect
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)cholelithiasis8.916e-07Highly InformativeDirect
Disease Ontology (DO)hypospadias2.47e-06Highly InformativeDirect
Disease Ontology (DO)adenoma4.058e-05Highly 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 homeostasis4.476e-08Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology5.132e-07Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal hormone level1.651e-05Moderately InformativeDirect
Mammalian Phenotype (MP)liver/biliary system phenotype2.464e-05Moderately 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 morphology1.434e-08InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology2.468e-06InformativeDirect
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 level3.163e-08Highly InformativeDirect
Mammalian Phenotype (MP)persistent hyperplastic primary vitreous2.396e-07Highly InformativeDirect
Mammalian Phenotype (MP)abnormal sublingual gland morphology4.189e-07Highly InformativeDirect
Mammalian Phenotype (MP)rudimentary Mullerian ducts1.293e-06Highly InformativeDirect
Mammalian Phenotype (MP)split cervical axis1.293e-06Highly InformativeDirect
Mammalian Phenotype (MP)absent sclera1.293e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland alveolus morphology1.965e-06Highly InformativeDirect
Mammalian Phenotype (MP)absent fetal ductus arteriosus2.945e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cricoid cartilage morphology5.871e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight7.023e-06Highly InformativeDirect
Mammalian Phenotype (MP)decreased compact bone area1.61e-05Highly InformativeDirect
Mammalian Phenotype (MP)increased renin activity4.886e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal pharyngeal arch artery morphology5.381e-05Highly InformativeDirect
Mammalian Phenotype (MP)ectopic ureter7.428e-05Highly 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 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 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

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 processVision6.118e-07Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing3.157e-06Least InformativeDirect
Coding sequence diversityAlternative promoter usage2.519e-05Moderately 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 protein2.489e-06Moderately InformativeDirect
Post-translational modificationChromatin regulator1.705e-08InformativeDirect
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) · 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) · UniProtKB KeyWords (KW) · Internal database links ]