SUPERFAMILY 1.75 HMM library and genome assignments server


HMG-box superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   HMG-box [ 47094]
Superfamily:   HMG-box [ 47095]
Families:   HMG-box [ 47096] (9)


Superfamily statistics
Genomes (456) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 12,455 13,422 25
Proteins 10,467 11,426 24


Functional annotation
General category Regulation
Detailed category DNA-binding

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)cellular component organization or biogenesis0.00049968.441e-08Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.0015620Least InformativeInherited
Biological Process (BP)regulation of cellular process0.023942.725e-06Least InformativeInherited
Biological Process (BP)single-organism cellular process0.043081.142e-13Least InformativeInherited
Biological Process (BP)organelle organization9.593e-060.0007422Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process1.311e-050Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process2.304e-050Moderately InformativeDirect
Biological Process (BP)regulation of gene expression3.126e-050Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process3.244e-050Moderately InformativeDirect
Biological Process (BP)chromosome organization1.911e-100InformativeDirect
Molecular Function (MF)binding0.00033850Least InformativeDirect
Molecular Function (MF)nucleic acid binding1.147e-130Moderately InformativeDirect
Molecular Function (MF)structural molecule activity4.803e-050.6419Moderately InformativeInherited
Molecular Function (MF)chromatin binding9.049e-120InformativeDirect
Molecular Function (MF)nucleic acid binding transcription factor activity7.733e-080InformativeDirect
Molecular Function (MF)DNA binding0.022520InformativeInherited
Molecular Function (MF)sequence-specific DNA binding transcription factor activity3.015e-080Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.031730.02552Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.0031030.01173Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.32871.89e-06Least InformativeInherited
Cellular Component (CC)chromosome5.646e-093.275e-11InformativeDirect

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 component organization or biogenesis 8.441e-08 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 2.725e-06 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.142e-13 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 8.148e-06 Least Informative Direct
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8228 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 0.0007422 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular 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) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 1.566e-10 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular 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) regulation of developmental process 0 Moderately Informative Direct
Biological Process (BP) reproduction 0 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 1.011e-10 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 2.099e-09 Moderately Informative Direct
Biological Process (BP) tissue development 2.61e-07 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 2.683e-05 Moderately Informative Direct
Biological Process (BP) cellular response to stress 5.738e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 8.151e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 9.913e-05 Moderately Informative Direct
Biological Process (BP) nervous system development 0.0002446 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.313 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.09092 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.0121 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.108 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.579 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.7802 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.02844 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.1369 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.604 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.8438 Moderately Informative Inherited
Biological Process (BP) organ development 0.002399 Moderately Informative Inherited
Biological Process (BP) immune system process 0.4978 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) embryonic morphogenesis 0 Informative Direct
Biological Process (BP) negative regulation of developmental process 0 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) central nervous system development 1.948e-14 Informative Direct
Biological Process (BP) negative regulation of gene expression 1.354e-12 Informative Direct
Biological Process (BP) embryonic organ development 1.519e-12 Informative Direct
Biological Process (BP) cellular process involved in reproduction 4.021e-11 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 8.302e-11 Informative Direct
Biological Process (BP) single organism reproductive process 9.499e-11 Informative Direct
Biological Process (BP) regulation of nervous system development 2.05e-10 Informative Direct
Biological Process (BP) positive regulation of gene expression 2.398e-09 Informative Direct
Biological Process (BP) organ morphogenesis 2.912e-09 Informative Direct
Biological Process (BP) growth 6.001e-09 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1.191e-08 Informative Direct
Biological Process (BP) hexose metabolic process 1.228e-07 Informative Direct
Biological Process (BP) positive regulation of cell proliferation 1.377e-07 Informative Direct
Biological Process (BP) gland development 2.008e-07 Informative Direct
Biological Process (BP) reproductive structure development 3.085e-07 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 5.933e-07 Informative Direct
Biological Process (BP) DNA metabolic process 7.822e-07 Informative Direct
Biological Process (BP) regulation of secretion 1.865e-06 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 6.984e-06 Informative Direct
Biological Process (BP) organelle localization 1.876e-05 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 2.521e-05 Informative Direct
Biological Process (BP) cardiovascular system development 7.101e-05 Informative Direct
Biological Process (BP) sensory organ development 0.0001455 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0002568 Informative Direct
Biological Process (BP) regulation of cell development 0.0003795 Informative Direct
Biological Process (BP) muscle structure development 0.0004755 Informative Direct
Biological Process (BP) sexual reproduction 0.000523 Informative Direct
Biological Process (BP) protein localization to organelle 0.000644 Informative Direct
Biological Process (BP) localization of cell 0.0007312 Informative Direct
Biological Process (BP) negative regulation of signaling 0.000871 Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 0.2883 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.009545 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.3449 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.816 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.003118 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.8285 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.08166 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.08807 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.9179 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.004946 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.01776 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.003637 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.001312 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of growth 0.8014 Informative Inherited
Biological Process (BP) generation of neurons 0.06887 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.00294 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) cell activation 0.2241 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.008012 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.007548 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) protein transport 0.01682 Informative Inherited
Biological Process (BP) ncRNA metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 1 Informative Inherited
Biological Process (BP) response to lipid 0.01022 Informative Inherited
Biological Process (BP) regulation of system process 1 Informative Inherited
Biological Process (BP) cell-cell signaling 0.1602 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1885 Informative Inherited
Biological Process (BP) regulation of locomotion 0.239 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.682 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) locomotion 0.08561 Informative Inherited
Biological Process (BP) cellular component movement 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.8796 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.2725 Informative Inherited
Biological Process (BP) response to nutrient levels 0.002526 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.1263 Informative Inherited
Biological Process (BP) mitochondrion organization 0.6489 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.09936 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.04018 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.07915 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) biological adhesion 0.06075 Informative Inherited
Biological Process (BP) spermatogenesis 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) stem cell development 0 Highly Informative Direct
Biological Process (BP) gene silencing 0 Highly Informative Direct
Biological Process (BP) glial cell differentiation 0 Highly Informative Direct
Biological Process (BP) diencephalon development 1.328e-13 Highly Informative Direct
Biological Process (BP) neural tube development 3.827e-13 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 6.125e-13 Highly Informative Direct
Biological Process (BP) energy reserve metabolic process 7.159e-13 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 1.621e-12 Highly Informative Direct
Biological Process (BP) endocrine system development 6.007e-12 Highly Informative Direct
Biological Process (BP) tube formation 2.926e-11 Highly Informative Direct
Biological Process (BP) ossification 1.103e-10 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-dependent 2.213e-10 Highly Informative Direct
Biological Process (BP) gonad development 2.373e-10 Highly Informative Direct
Biological Process (BP) nuclear import 4.662e-10 Highly Informative Direct
Biological Process (BP) regulation of ion homeostasis 9.273e-10 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 9.622e-10 Highly Informative Direct
Biological Process (BP) connective tissue development 1.804e-09 Highly Informative Direct
Biological Process (BP) regulation of binding 2.45e-09 Highly Informative Direct
Biological Process (BP) protein localization to nucleus 6.572e-09 Highly Informative Direct
Biological Process (BP) development of primary male sexual characteristics 1.814e-08 Highly Informative Direct
Biological Process (BP) skeletal system development 1.855e-08 Highly Informative Direct
Biological Process (BP) protein import 2.07e-08 Highly Informative Direct
Biological Process (BP) protein targeting to nucleus 4.246e-08 Highly Informative Direct
Biological Process (BP) hair follicle development 4.3e-08 Highly Informative Direct
Biological Process (BP) mesenchyme development 1.316e-07 Highly Informative Direct
Biological Process (BP) T cell differentiation 1.766e-07 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 6.834e-07 Highly Informative Direct
Biological Process (BP) retina development in camera-type eye 7.627e-07 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular transport 1.104e-06 Highly Informative Direct
Biological Process (BP) protein-DNA complex assembly 7.034e-06 Highly Informative Direct
Biological Process (BP) photoreceptor cell differentiation 1.305e-05 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 1.61e-05 Highly Informative Direct
Biological Process (BP) positive regulation of epithelial cell proliferation 1.744e-05 Highly Informative Direct
Biological Process (BP) negative regulation of protein transport 2.627e-05 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 2.843e-05 Highly Informative Direct
Biological Process (BP) regulation of intracellular protein transport 7.624e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 9.504e-05 Highly Informative Direct
Biological Process (BP) digestion 0.0001006 Highly Informative Direct
Biological Process (BP) morphogenesis of a branching epithelium 0.0001292 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0001472 Highly Informative Direct
Biological Process (BP) sensory perception 0.0002672 Highly Informative Direct
Biological Process (BP) histone modification 0.0002749 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.0003311 Highly Informative Direct
Biological Process (BP) inner ear development 0.0003456 Highly Informative Direct
Biological Process (BP) cell proliferation 0.0003908 Highly Informative Direct
Biological Process (BP) cellular response to starvation 0.0004912 Highly Informative Direct
Biological Process (BP) chromatin assembly 0.0005373 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 0.0006719 Highly Informative Direct
Biological Process (BP) positive regulation of lipid metabolic process 0.0008898 Highly Informative Direct
Biological Process (BP) regulation of reproductive process 0.0459 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.266 Highly Informative Inherited
Biological Process (BP) cell cycle checkpoint 0.05901 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.008865 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.02317 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.005305 Highly Informative Inherited
Biological Process (BP) renal system development 0.003971 Highly Informative Inherited
Biological Process (BP) developmental growth 0.1519 Highly Informative Inherited
Biological Process (BP) tissue homeostasis 0.01866 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.001239 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.0166 Highly Informative Inherited
Biological Process (BP) regulation of protein stability 0.002732 Highly Informative Inherited
Biological Process (BP) positive regulation of secretion 0.1232 Highly Informative Inherited
Biological Process (BP) negative regulation of growth 0.05737 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.06024 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.006548 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.02026 Highly Informative Inherited
Biological Process (BP) DNA modification 0.007283 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.1761 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.7742 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.635 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.6343 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.004821 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.7285 Highly Informative Inherited
Biological Process (BP) regulation of epithelial cell differentiation 0.04092 Highly Informative Inherited
Biological Process (BP) response to carbohydrate stimulus 0.01422 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.05354 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.01897 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.008181 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.7574 Highly Informative Inherited
Biological Process (BP) cell growth 0.09454 Highly Informative Inherited
Biological Process (BP) cardiocyte differentiation 0.02679 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.02371 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) cell adhesion 0.5637 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.9943 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.6419 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) protein dimerization activity 1.01e-12 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.08086 Informative Inherited
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 6.395e-07 Highly Informative Direct
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 0.01717 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1.89e-06 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.02552 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01173 Least Informative Inherited
Cellular Component (CC) protein complex 0.9551 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 4.229e-12 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.2587 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.1395 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.05042 Moderately Informative Inherited
Cellular Component (CC) chromosome 3.275e-11 Informative Direct
Cellular Component (CC) nucleoplasm part 1.259e-07 Informative Direct
Cellular Component (CC) mitochondrial matrix 0.7368 Informative Inherited
Cellular Component (CC) transcription factor complex 0 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 2.15e-09 Highly Informative Direct
Cellular Component (CC) kinetochore 0.0001798 Highly Informative Direct
Cellular Component (CC) protein serine/threonine phosphatase complex 0.001333 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups2.056e-08Least InformativeDirect
Enzyme Commission (EC)Methyltransferases2.065e-09Moderately InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)cell type cancer0.795Moderately InformativeInherited

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.6632Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.7468Least InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.05363Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.1491Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.4902Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.008585InformativeInherited
Mammalian Phenotype (MP)abnormal limb morphology0.1921InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.2522InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.5515InformativeInherited
Mammalian Phenotype (MP)abnormal telencephalon development0.1034Highly InformativeInherited
Mammalian Phenotype (MP)abnormal limb long bone morphology0.3252Highly InformativeInherited
Mammalian Phenotype (MP)abnormal hindlimb morphology0.3878Highly InformativeInherited
Mammalian Phenotype (MP)abnormal erythrocyte morphology0.4371Highly InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.6533Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)reproductive system morphology variant7.098e-05Moderately InformativeDirect
Worm Phenotype (WP)organ system development variant0.005194Moderately InformativeInherited
Worm Phenotype (WP)protruding vulva1.634e-05InformativeDirect
Worm Phenotype (WP)exploded through vulva0.0001076InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)digestive system3.934e-05Least InformativeDirect
Zebrafish Anatomy (ZA)portion of tissue0.004718Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.006281Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.016Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.06541Least InformativeInherited
Zebrafish Anatomy (ZA)head0.1718Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.4427Least InformativeInherited
Zebrafish Anatomy (ZA)pharyngeal arch0.0007672Moderately InformativeDirect
Zebrafish Anatomy (ZA)suspensorium0.001757Moderately InformativeInherited
Zebrafish Anatomy (ZA)oral region0.003347Moderately InformativeInherited
Zebrafish Anatomy (ZA)cartilage element0.2777Moderately InformativeInherited
Zebrafish Anatomy (ZA)eye0.3007Moderately InformativeInherited
Zebrafish Anatomy (ZA)integument0.4054Moderately InformativeInherited
Zebrafish Anatomy (ZA)electrically responsive cell1Moderately InformativeInherited
Zebrafish Anatomy (ZA)scapulocoracoid8.794e-07InformativeDirect
Zebrafish Anatomy (ZA)ceratobranchial 5 bone3.972e-06InformativeDirect
Zebrafish Anatomy (ZA)pectoral fin endoskeletal disc4.306e-06InformativeDirect
Zebrafish Anatomy (ZA)intramembranous bone7.301e-06InformativeDirect
Zebrafish Anatomy (ZA)ethmoid cartilage1.138e-05InformativeDirect
Zebrafish Anatomy (ZA)amacrine cell1.288e-05InformativeDirect
Zebrafish Anatomy (ZA)iridophore1.431e-05InformativeDirect
Zebrafish Anatomy (ZA)embryonic structure5.405e-05InformativeDirect
Zebrafish Anatomy (ZA)sphenoid region0.0001324InformativeDirect
Zebrafish Anatomy (ZA)Muller cell0.0001377InformativeDirect
Zebrafish Anatomy (ZA)retroarticular0.0002348InformativeDirect
Zebrafish Anatomy (ZA)basal plate cartilage0.0005037InformativeDirect
Zebrafish Anatomy (ZA)occipital arch cartilage0.0005037InformativeDirect
Zebrafish Anatomy (ZA)orbital region0.0005511InformativeDirect
Zebrafish Anatomy (ZA)dermatocranium0.0008734InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)central nervous system0.04518Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.1011Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.1044Least InformativeInherited
Xenopus ANatomical entity (XAN)portion of tissue0.3551Least InformativeInherited
Xenopus ANatomical entity (XAN)cell0.5233Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure2.39e-05Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.01057Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.07553Moderately InformativeInherited
Xenopus ANatomical entity (XAN)visual system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)forebrain1.091e-05InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain2.136e-05InformativeDirect
Xenopus ANatomical entity (XAN)neural plate2.996e-05InformativeDirect
Xenopus ANatomical entity (XAN)anatomical direction0.0006935InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.0007614InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border9.705e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)sensorial layer of neurectoderm1.318e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic field1.56e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain-hindbrain boundary1.852e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural fold0.0002241Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain0.00029Highly InformativeDirect
Xenopus ANatomical entity (XAN)olfactory system0.0004481Highly InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.0004867Highly InformativeDirect
Xenopus ANatomical entity (XAN)zygote0.0007274Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic vesicle0.0007459Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial neural crest0.001112Highly InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)cultured plant cell2.191e-11Highly InformativeDirect
Plant ANatomical entity (PAN)plant ovule0.0007389Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups2.072e-08Moderately InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processDNA damage0.000248Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processWnt signaling pathway0InformativeDirect
Biological processNeurogenesis4.535e-10InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome0InformativeDirect
DomainRepeat2.37e-05Least InformativeDirect
DomainCoiled coil9.014e-08Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationChromatin regulator3.052e-14InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation9.085e-16Moderately InformativeDirect
Post-translational modificationIsopeptide bond6.623e-14Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009071 SSF47095 Protein matches
Abstract

High mobility group (HMG) box domains are involved in binding DNA, and may be involved in protein-protein interactions as well. The structure of the HMG-box domain consists of three helices in an irregular array. HMG-box domains are found in one or more copies in HMG-box proteins, which form a large, diverse family involved in the regulation of DNA-dependent processes such as transcription, replication, and strand repair, all of which require the bending and unwinding of chromatin. Many of these proteins are regulators of gene expression. HMG-box proteins are found in a variety of eukaryotic organisms, and can be broadly divided into two groups, based on sequence-dependent and sequence-independent DNA recognition; the former usually contain one HMG-box motif, while the latter can contain multiple HMG-box motifs.

HMG-box domains can be found in single or multiple copies in the following protein classes: HMG1 and HMG2 non-histone components of chromatin; SRY (sex determining region Y protein) involved in differential gonadogenesis; the SOX family of transcription factors [PubMed12920151]; sequence-specific LEF1 (lymphoid enhancer binding factor 1) and TCF-1 (T-cell factor 1) involved in regulation of organogenesis and thymocyte differentiation [PubMed10890911]; structure-specific recognition protein SSRP involved in transcription and replication; MTF1 mitochondrial transcription factor; nucleolar transcription factors UBF 1/2 (upstream binding factor) involved in transcription by RNA polymerase I; Abf2 yeast ARS-binding factor [PubMed11779632]; yeast transcription factors lxr1, Rox1, Nhp6b and Spp41; mating type proteins (MAT) involved in the sexual reproduction of fungi [PubMed12781674]; and the YABBY plant-specific transcription factors.


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

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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 16 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 HMG-box 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 16 hidden Markov models representing the HMG-box 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) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]