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 (508) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 13,679 17,707 25
Proteins 11,485 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 process0.000048340Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00085050.000002384Least InformativeDirect
Biological Process (BP)regulation of cellular process0.0022430.000004951Least InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.000000051890Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process0.00000011160Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.00000018450Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.00000076230Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.0000016260.0000003342Moderately InformativeDirect
Biological Process (BP)chromosome organization0.00000000029270InformativeDirect
Molecular Function (MF)binding0.00017270Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.000071580.7337Moderately InformativeInherited
Molecular Function (MF)chromatin binding0.0000000022640InformativeDirect
Molecular Function (MF)nucleic acid binding transcription factor activity0.00000010950InformativeDirect
Molecular Function (MF)DNA binding0.0037750InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.025210.01287Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.040090.008183Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.57830.0000000008544Least InformativeInherited
Cellular Component (CC)chromosome0.00000000011610.00000000008991InformativeDirect
Cellular Component (CC)chromatin0.0000038750.0007535Highly 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 metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000002384 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.000004951 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) developmental process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0.000006747 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.00147 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8708 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1717 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) macromolecular complex subunit organization 0.0000003342 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0.000000001734 Moderately Informative Direct
Biological Process (BP) reproductive process 0 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic 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) cellular macromolecule biosynthetic process 0.000000000000001913 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.000000000000003707 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.00000003645 Moderately Informative Direct
Biological Process (BP) tissue development 0.000000145 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0000002631 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0000006351 Moderately Informative Direct
Biological Process (BP) organ development 0.00002045 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.00003526 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0001134 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.0001286 Moderately Informative Direct
Biological Process (BP) nervous system development 0.00028 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.9175 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.1115 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.3434 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.2165 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) response to organic substance 0.06796 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.2921 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.3513 Moderately Informative Inherited
Biological Process (BP) immune system process 0.5776 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.8715 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.4803 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.00164 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.033 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.938 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) single-organism organelle organization 0.3831 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.05942 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) chromosome organization 0 Informative Direct
Biological Process (BP) embryonic morphogenesis 0 Informative Direct
Biological Process (BP) transcription, DNA-templated 0 Informative Direct
Biological Process (BP) single organism reproductive process 0 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) tube development 0.000000000000007248 Informative Direct
Biological Process (BP) central nervous system development 0.00000000000002753 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.0000000000001682 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 0.000000000002105 Informative Direct
Biological Process (BP) embryonic organ development 0.00000000001034 Informative Direct
Biological Process (BP) sexual reproduction 0.00000000004921 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0.000000001819 Informative Direct
Biological Process (BP) reproductive structure development 0.000000002331 Informative Direct
Biological Process (BP) regulation of nervous system development 0.00000001249 Informative Direct
Biological Process (BP) organ morphogenesis 0.00000002404 Informative Direct
Biological Process (BP) cellular response to external stimulus 0.00000006002 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0000002263 Informative Direct
Biological Process (BP) growth 0.0000002328 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0000002553 Informative Direct
Biological Process (BP) hexose metabolic process 0.0000005604 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.000000938 Informative Direct
Biological Process (BP) regulation of secretion 0.000002258 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.00000371 Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.00001064 Informative Direct
Biological Process (BP) muscle structure development 0.00001519 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00001931 Informative Direct
Biological Process (BP) cell proliferation 0.00003107 Informative Direct
Biological Process (BP) regulation of cell development 0.0000359 Informative Direct
Biological Process (BP) gland development 0.0000539 Informative Direct
Biological Process (BP) organelle localization 0.00005435 Informative Direct
Biological Process (BP) cardiovascular system development 0.0001165 Informative Direct
Biological Process (BP) protein localization to organelle 0.000129 Informative Direct
Biological Process (BP) leukocyte activation 0.0002509 Informative Direct
Biological Process (BP) sensory organ development 0.0003609 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0003687 Informative Direct
Biological Process (BP) localization of cell 0.0007498 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 0.0009547 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.1069 Informative Inherited
Biological Process (BP) regulation of locomotion 0.1464 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.009215 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.1665 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.01158 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.3583 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.2907 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) epithelium development 0.04727 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.1206 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.1243 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.9133 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.04336 Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.01501 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) negative regulation of transport 1 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) multicellular organismal homeostasis 0.0535 Informative Inherited
Biological Process (BP) locomotion 0.06058 Informative Inherited
Biological Process (BP) cellular component movement 0.6058 Informative Inherited
Biological Process (BP) regulation of cell activation 0.5344 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.2986 Informative Inherited
Biological Process (BP) regulation of growth 0.733 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.5395 Informative Inherited
Biological Process (BP) single-organism cellular localization 0.005552 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.002411 Informative Inherited
Biological Process (BP) ncRNA metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) regulation of protein localization 0.6419 Informative Inherited
Biological Process (BP) response to lipid 0.01101 Informative Inherited
Biological Process (BP) response to acid chemical 0.1116 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.04796 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.01993 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 1 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.01662 Informative Inherited
Biological Process (BP) generation of neurons 0.04557 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.7766 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of intracellular signal transduction 0.1375 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.006435 Informative Inherited
Biological Process (BP) response to nutrient levels 0.003194 Informative Inherited
Biological Process (BP) neurological system process 0.6833 Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.003004 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.4073 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) protein transport 0.02616 Informative Inherited
Biological Process (BP) mitochondrion organization 0.5985 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.01092 Informative Inherited
Biological Process (BP) DNA repair 0.006207 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.04032 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.08193 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.002126 Informative Inherited
Biological Process (BP) regulation of immune response 1 Informative Inherited
Biological Process (BP) positive regulation of immune system process 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.01667 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) glial cell differentiation 0 Highly Informative Direct
Biological Process (BP) spermatogenesis 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) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) diencephalon development 0.000000000000003707 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.00000000000007575 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.00000000000008202 Highly Informative Direct
Biological Process (BP) neural tube development 0.0000000000003876 Highly Informative Direct
Biological Process (BP) energy reserve metabolic process 0.000000000001856 Highly Informative Direct
Biological Process (BP) hair cycle process 0.000000000002776 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 0.00000000000467 Highly Informative Direct
Biological Process (BP) endocrine system development 0.000000000005388 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-templated 0.00000000001176 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 0.0000000000619 Highly Informative Direct
Biological Process (BP) single-organism nuclear import 0.0000000004911 Highly Informative Direct
Biological Process (BP) connective tissue development 0.0000000005967 Highly Informative Direct
Biological Process (BP) ossification 0.000000000881 Highly Informative Direct
Biological Process (BP) gonad development 0.000000001019 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.000000001244 Highly Informative Direct
Biological Process (BP) protein targeting to nucleus 0.00000000376 Highly Informative Direct
Biological Process (BP) skeletal system development 0.00000000694 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.00000001762 Highly Informative Direct
Biological Process (BP) regulation of binding 0.0000000188 Highly Informative Direct
Biological Process (BP) protein import 0.00000003308 Highly Informative Direct
Biological Process (BP) glucose metabolic process 0.00000004695 Highly Informative Direct
Biological Process (BP) epithelial tube formation 0.0000002376 Highly Informative Direct
Biological Process (BP) T cell differentiation 0.0000002497 Highly Informative Direct
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.000001166 Highly Informative Direct
Biological Process (BP) retina development in camera-type eye 0.000001225 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular transport 0.000003249 Highly Informative Direct
Biological Process (BP) positive regulation of epithelial cell proliferation 0.000009554 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 0.00002202 Highly Informative Direct
Biological Process (BP) positive regulation of production of molecular mediator of immune response 0.00002487 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.00003912 Highly Informative Direct
Biological Process (BP) negative regulation of protein transport 0.0000417 Highly Informative Direct
Biological Process (BP) positive regulation of lipid metabolic process 0.0001162 Highly Informative Direct
Biological Process (BP) digestion 0.0001274 Highly Informative Direct
Biological Process (BP) sensory perception 0.0001603 Highly Informative Direct
Biological Process (BP) kidney development 0.0001964 Highly Informative Direct
Biological Process (BP) histone modification 0.0005868 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 1 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.009933 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.375 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.008839 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.00997 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.006061 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.09141 Highly Informative Inherited
Biological Process (BP) columnar/cuboidal epithelial cell differentiation 0.1228 Highly Informative Inherited
Biological Process (BP) developmental growth 0.1803 Highly Informative Inherited
Biological Process (BP) respiratory system development 0.0581 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.001152 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.004368 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.2411 Highly Informative Inherited
Biological Process (BP) regulation of protein stability 0.01325 Highly Informative Inherited
Biological Process (BP) positive regulation of lymphocyte mediated immunity 0.001464 Highly Informative Inherited
Biological Process (BP) positive regulation of cell activation 0.889 Highly Informative Inherited
Biological Process (BP) regulation of adaptive immune response 0.005764 Highly Informative Inherited
Biological Process (BP) negative regulation of nervous system development 0.002298 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 0.00303 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.02101 Highly Informative Inherited
Biological Process (BP) DNA modification 0.006293 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.3311 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.905 Highly Informative Inherited
Biological Process (BP) response to carbohydrate 0.01293 Highly Informative Inherited
Biological Process (BP) ear development 0.05476 Highly Informative Inherited
Biological Process (BP) regulation of epithelial cell differentiation 0.06206 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.627 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.0106 Highly Informative Inherited
Biological Process (BP) protein methylation 0.4872 Highly Informative Inherited
Biological Process (BP) regulation of circadian rhythm 0.01892 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.0567 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.2483 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.00913 Highly Informative Inherited
Biological Process (BP) germ cell development 1 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.5946 Highly Informative Inherited
Biological Process (BP) cell growth 0.03438 Highly Informative Inherited
Biological Process (BP) cardiocyte differentiation 0.02218 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.02484 Highly Informative Inherited
Biological Process (BP) regulation of neural precursor cell proliferation 0.113 Highly Informative Inherited
Biological Process (BP) positive regulation of neurogenesis 1 Highly Informative Inherited
Biological Process (BP) epidermis development 1 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.9386 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 0.7337 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 0.0000000000005254 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.1048 Informative Inherited
Molecular Function (MF) protein heterodimerization 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 0.000000000000002376 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000001717 Highly Informative Direct
Molecular Function (MF) methyltransferase activity 0.07284 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 0.002373 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.0000000008544 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.01287 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.008183 Least Informative Inherited
Cellular Component (CC) nuclear part 0.01859 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.1745 Moderately Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0.3135 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.0833 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.00000000008991 Informative Direct
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) mitochondrial matrix 0.2561 Informative Inherited
Cellular Component (CC) chromatin 0.0007535 Highly Informative Direct
Cellular Component (CC) cytoplasmic ribonucleoprotein granule 0.00000000000008122 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.00000001421 Highly Informative Direct
Cellular Component (CC) protein serine/threonine phosphatase complex 0.001671 Highly Informative Inherited
Cellular Component (CC) chromosome, centromeric region 0.002903 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

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

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 ]