SUPERFAMILY 1.75 HMM library and genome assignments server

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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 (507) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 13,618 17,707 25
Proteins 11,457 15,165 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)regulation of metabolic process0.000037970Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00080740.0000004304Least InformativeDirect
Biological Process (BP)regulation of cellular process0.001960.000001183Least InformativeInherited
Biological Process (BP)single-organism cellular process0.019220.0000000000002825Least InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.000000051390Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process0.00000011120Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.00000016510Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.00000019310Moderately InformativeDirect
Biological Process (BP)organelle organization0.000058380.0009831Moderately InformativeDirect
Biological Process (BP)chromosome organization0.0000000003020InformativeDirect
Molecular Function (MF)binding0.00016460Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.00007150.7267Moderately InformativeInherited
Molecular Function (MF)chromatin binding0.0000000023310InformativeDirect
Molecular Function (MF)nucleic acid binding transcription factor activity0.00000010980InformativeDirect
Molecular Function (MF)DNA binding0.0074840InformativeInherited
Molecular Function (MF)sequence-specific DNA binding transcription factor activity0.000000036280Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.024320.008545Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.039950.002358Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.65570.0000001079Least InformativeInherited
Cellular Component (CC)chromosome0.00000000011790.0000000003892InformativeDirect

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 metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0000004304 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.000001183 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0000000000002825 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 0.000009023 Least Informative Direct
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8171 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) 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 nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) organelle organization 0.0009831 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0.0000000003059 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) regulation of developmental process 0 Moderately Informative Direct
Biological Process (BP) reproduction 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.000000000000001938 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.000000000000003755 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.0000000002602 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0000003875 Moderately Informative Direct
Biological Process (BP) tissue development 0.0000007392 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0000008271 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.00002922 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.00007647 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.00009748 Moderately Informative Direct
Biological Process (BP) nervous system development 0.0002005 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.3397 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 0.1013 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.2608 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.2944 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.853 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.06022 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.2005 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.4855 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) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.9417 Moderately Informative Inherited
Biological Process (BP) organ development 0.005246 Moderately Informative Inherited
Biological Process (BP) immune system process 0.5555 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 nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.000000000000007347 Informative Direct
Biological Process (BP) central nervous system development 0.00000000000002793 Informative Direct
Biological Process (BP) negative regulation of gene expression 0.000000000001645 Informative Direct
Biological Process (BP) embryonic organ development 0.00000000000553 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.00000000001719 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 0.0000000000895 Informative Direct
Biological Process (BP) single organism reproductive process 0.0000000004496 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.000000001672 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.000000007325 Informative Direct
Biological Process (BP) regulation of nervous system development 0.000000007336 Informative Direct
Biological Process (BP) organ morphogenesis 0.00000001051 Informative Direct
Biological Process (BP) growth 0.0000001986 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0000002281 Informative Direct
Biological Process (BP) gland development 0.0000002405 Informative Direct
Biological Process (BP) hexose metabolic process 0.0000008337 Informative Direct
Biological Process (BP) DNA metabolic process 0.000001056 Informative Direct
Biological Process (BP) regulation of secretion 0.00000231 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.000002643 Informative Direct
Biological Process (BP) developmental process involved in reproduction 0.000004462 Informative Direct
Biological Process (BP) reproductive system development 0.000004515 Informative Direct
Biological Process (BP) tube development 0.000009847 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 0.00001122 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00002684 Informative Direct
Biological Process (BP) organelle localization 0.00003605 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.00008619 Informative Direct
Biological Process (BP) cardiovascular system development 0.00008947 Informative Direct
Biological Process (BP) protein localization to organelle 0.0001039 Informative Direct
Biological Process (BP) leukocyte activation 0.000236 Informative Direct
Biological Process (BP) sensory organ development 0.0002921 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0003367 Informative Direct
Biological Process (BP) muscle structure development 0.0003468 Informative Direct
Biological Process (BP) regulation of cell development 0.0004661 Informative Direct
Biological Process (BP) sexual reproduction 0.0004737 Informative Direct
Biological Process (BP) localization of cell 0.0006425 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.1062 Informative Inherited
Biological Process (BP) regulation of locomotion 0.141 Informative Inherited
Biological Process (BP) regulation of apoptotic signaling pathway 0.2915 Informative Inherited
Biological Process (BP) regulation of protein localization 0.6295 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.3063 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.6739 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.002699 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.008914 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.3055 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.7257 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.1163 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.1165 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.9153 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.008 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.03398 Informative Inherited
Biological Process (BP) negative regulation of transport 1 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.005504 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.001756 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of growth 0.7725 Informative Inherited
Biological Process (BP) generation of neurons 0.04383 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.001534 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) regulation of cell activation 0.534 Informative Inherited
Biological Process (BP) positive regulation of immune system process 1 Informative Inherited
Biological Process (BP) regulation of immune response 1 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.524 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.01643 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.01997 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) muscle tissue development 0.9214 Informative Inherited
Biological Process (BP) protein transport 0.02386 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 0.01075 Informative Inherited
Biological Process (BP) regulation of system process 1 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.641 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) locomotion 0.05511 Informative Inherited
Biological Process (BP) cellular component movement 1 Informative Inherited
Biological Process (BP) biological adhesion 0.04559 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.9093 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.4225 Informative Inherited
Biological Process (BP) response to nutrient levels 0.002332 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.1362 Informative Inherited
Biological Process (BP) mitochondrion organization 0.662 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.1461 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.04402 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.08557 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) spermatogenesis 0 Highly Informative Direct
Biological Process (BP) regulation of striated muscle tissue development 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) negative regulation of cell differentiation 0.000000000000001938 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.00000000000007357 Highly Informative Direct
Biological Process (BP) diencephalon development 0.00000000000009575 Highly Informative Direct
Biological Process (BP) neural tube development 0.000000000000556 Highly Informative Direct
Biological Process (BP) regulation of striated muscle cell differentiation 0.000000000001463 Highly Informative Direct
Biological Process (BP) energy reserve metabolic process 0.000000000001814 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 0.000000000001971 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 0.000000000003006 Highly Informative Direct
Biological Process (BP) endocrine system development 0.000000000004293 Highly Informative Direct
Biological Process (BP) protein localization to nucleus 0.000000000142 Highly Informative Direct
Biological Process (BP) connective tissue development 0.0000000002698 Highly Informative Direct
Biological Process (BP) ossification 0.0000000003518 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-dependent 0.0000000004206 Highly Informative Direct
Biological Process (BP) gonad development 0.0000000005614 Highly Informative Direct
Biological Process (BP) nuclear import 0.0000000006075 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.000000001435 Highly Informative Direct
Biological Process (BP) regulation of ion homeostasis 0.00000000417 Highly Informative Direct
Biological Process (BP) skeletal system development 0.000000004919 Highly Informative Direct
Biological Process (BP) regulation of binding 0.00000000904 Highly Informative Direct
Biological Process (BP) hair follicle development 0.00000001585 Highly Informative Direct
Biological Process (BP) protein import 0.00000003016 Highly Informative Direct
Biological Process (BP) protein targeting to nucleus 0.00000003915 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.00000006179 Highly Informative Direct
Biological Process (BP) epithelial tube formation 0.0000002309 Highly Informative Direct
Biological Process (BP) T cell differentiation 0.0000002487 Highly Informative Direct
Biological Process (BP) retina development in camera-type eye 0.000001229 Highly Informative Direct
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.000001232 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular transport 0.000001596 Highly Informative Direct
Biological Process (BP) positive regulation of epithelial cell proliferation 0.000009458 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 0.00002094 Highly Informative Direct
Biological Process (BP) negative regulation of protein transport 0.00003576 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.00003935 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.00008096 Highly Informative Direct
Biological Process (BP) digestion 0.00009031 Highly Informative Direct
Biological Process (BP) regulation of intracellular protein transport 0.0001102 Highly Informative Direct
Biological Process (BP) sensory perception 0.0001438 Highly Informative Direct
Biological Process (BP) regulation of production of molecular mediator of immune response 0.0002441 Highly Informative Direct
Biological Process (BP) cellular response to starvation 0.0003718 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0004486 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.0005004 Highly Informative Direct
Biological Process (BP) histone modification 0.0005082 Highly Informative Direct
Biological Process (BP) positive regulation of lipid metabolic process 0.0007883 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 1 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.0537 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.3602 Highly Informative Inherited
Biological Process (BP) ear development 0.05599 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.00905 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.009365 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.005695 Highly Informative Inherited
Biological Process (BP) renal system development 0.00512 Highly Informative Inherited
Biological Process (BP) developmental growth 0.1782 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.001152 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.00845 Highly Informative Inherited
Biological Process (BP) regulation of protein stability 0.01229 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.08448 Highly Informative Inherited
Biological Process (BP) positive regulation of cell activation 0.9416 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.03221 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.01712 Highly Informative Inherited
Biological Process (BP) DNA modification 0.007669 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.2635 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.9044 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.5962 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.7227 Highly Informative Inherited
Biological Process (BP) protein methylation 0.4545 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.006916 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.6181 Highly Informative Inherited
Biological Process (BP) regulation of epithelial cell differentiation 0.05685 Highly Informative Inherited
Biological Process (BP) cell adhesion 0.5261 Highly Informative Inherited
Biological Process (BP) response to carbohydrate stimulus 0.01278 Highly Informative Inherited
Biological Process (BP) regulation of circadian rhythm 0.01899 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.03824 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.02556 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.01001 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.8641 Highly Informative Inherited
Biological Process (BP) cell growth 0.111 Highly Informative Inherited
Biological Process (BP) cardiocyte differentiation 0.0233 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.02555 Highly Informative Inherited
Biological Process (BP) regulation of adaptive immune response based on somatic recombination of immune receptors built from 0.004137 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.7267 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 0.0000000000002139 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.09971 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) protein heterodimerization activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.000000000000002332 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000001225 Highly Informative Direct
Molecular Function (MF) methyltransferase activity 0.06895 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.0000001079 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.008545 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.002358 Least Informative Inherited
Cellular Component (CC) protein complex 0.99 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.0000000000002259 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.27 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.1685 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.04084 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.0000000003892 Informative Direct
Cellular Component (CC) nucleoplasm part 0.0000003145 Informative Direct
Cellular Component (CC) mitochondrial matrix 0.7436 Informative Inherited
Cellular Component (CC) perinuclear region of cytoplasm 0.00000001182 Highly Informative Direct
Cellular Component (CC) kinetochore 0.0002241 Highly Informative Direct
Cellular Component (CC) protein serine/threonine phosphatase complex 0.001465 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 groups0.00000002056Least InformativeDirect
Enzyme Commission (EC)Methyltransferases0.000000002065Moderately 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 cancer0.7689Moderately InformativeInherited

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 morphology0.002024Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of male external genitalia0.0004747InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.3879Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.5948Least InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.0415Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.004711InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.007818InformativeInherited
Mammalian Phenotype (MP)abnormal fluid regulation0.01391InformativeInherited
Mammalian Phenotype (MP)abnormal cartilage morphology0.3066InformativeInherited
Mammalian Phenotype (MP)abnormal sternum morphology0.0007003Highly InformativeDirect
Mammalian Phenotype (MP)edema0.0009377Highly InformativeDirect
Mammalian Phenotype (MP)abnormal erythrocyte morphology0.3325Highly InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.5037Highly 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 variant0.00007098Moderately InformativeDirect
Worm Phenotype (WP)organ system development variant0.005194Moderately InformativeInherited
Worm Phenotype (WP)protruding vulva0.00001634InformativeDirect
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 system0.00003894Least InformativeDirect
Zebrafish Anatomy (ZA)portion of tissue0.005195Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.006165Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.01605Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.07166Least InformativeInherited
Zebrafish Anatomy (ZA)head0.1647Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.4488Least InformativeInherited
Zebrafish Anatomy (ZA)embryonic structure0.000092Moderately InformativeDirect
Zebrafish Anatomy (ZA)skeletal element0.0001398Moderately InformativeDirect
Zebrafish Anatomy (ZA)electrically signaling cell0.00101Moderately InformativeInherited
Zebrafish Anatomy (ZA)pharyngeal arch0.001082Moderately InformativeInherited
Zebrafish Anatomy (ZA)paired fin0.001769Moderately InformativeInherited
Zebrafish Anatomy (ZA)suspensorium0.002214Moderately InformativeInherited
Zebrafish Anatomy (ZA)oral region0.004292Moderately InformativeInherited
Zebrafish Anatomy (ZA)sensory system0.1574Moderately InformativeInherited
Zebrafish Anatomy (ZA)electrically responsive cell1Moderately InformativeInherited
Zebrafish Anatomy (ZA)scapulocoracoid0.00000202InformativeDirect
Zebrafish Anatomy (ZA)ceratobranchial 5 bone0.000004877InformativeDirect
Zebrafish Anatomy (ZA)pectoral fin endoskeletal disc0.000007412InformativeDirect
Zebrafish Anatomy (ZA)intramembranous bone0.000008727InformativeDirect
Zebrafish Anatomy (ZA)amacrine cell0.00001236InformativeDirect
Zebrafish Anatomy (ZA)ethmoid cartilage0.00001654InformativeDirect
Zebrafish Anatomy (ZA)iridophore0.00002022InformativeDirect
Zebrafish Anatomy (ZA)Muller cell0.000133InformativeDirect
Zebrafish Anatomy (ZA)sphenoid region0.0002051InformativeDirect
Zebrafish Anatomy (ZA)retroarticular0.0002051InformativeDirect
Zebrafish Anatomy (ZA)basal plate cartilage0.0003182InformativeDirect
Zebrafish Anatomy (ZA)occipital arch cartilage0.0003182InformativeDirect
Zebrafish Anatomy (ZA)orbital region0.0007296InformativeDirect
Zebrafish Anatomy (ZA)dermatocranium0.000916InformativeDirect
Zebrafish Anatomy (ZA)fin fold actinotrichium0.0009826InformativeDirect

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 system0.04702Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.1009Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.1103Least InformativeInherited
Xenopus ANatomical entity (XAN)portion of tissue0.3642Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.00003818Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.01308Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.07964Moderately InformativeInherited
Xenopus ANatomical entity (XAN)forebrain0.00002771InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.00005323InformativeDirect
Xenopus ANatomical entity (XAN)neural plate0.00006371InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.0002898InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.003754InformativeInherited
Xenopus ANatomical entity (XAN)neural plate border0.000001291Highly InformativeDirect
Xenopus ANatomical entity (XAN)sensorial layer of neurectoderm0.00001495Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic field0.00002476Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain-hindbrain boundary0.00003055Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial neural crest0.0003049Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural fold0.0003099Highly InformativeDirect
Xenopus ANatomical entity (XAN)diencephalon0.0004226Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain0.0005878Highly InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.0006181Highly InformativeDirect
Xenopus ANatomical entity (XAN)olfactory system0.0008495Highly InformativeDirect
Xenopus ANatomical entity (XAN)blood vessel0.0008663Highly InformativeDirect

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 cell0.00000000002191Highly 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 groups0.00000002135Moderately 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 damage0.0002562Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processWnt signaling pathway0InformativeDirect
Biological processNeurogenesis0.0000000006211InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome0InformativeDirect
DomainRepeat0.00004877Least InformativeDirect
DomainCoiled coil0.0000001124Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationChromatin regulator0.00000000000004114InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.00000000000001571Moderately 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) · Human Phenotype (HP) · 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 ]