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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 (516) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 14,117 37,742 25
Proteins 11,839 31,975 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)biological regulation0.09480Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.00410Least InformativeInherited
Biological Process (BP)organelle organization0.000087940Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process0.00017460Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.0004260Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.033720Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.03760.0000001577Moderately InformativeInherited
Biological Process (BP)chromosome organization0.0000000028430InformativeDirect
Molecular Function (MF)binding0.00039060Least InformativeDirect
Molecular Function (MF)nucleic acid binding0.0000000000034770Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.00034870.9526Moderately InformativeInherited
Molecular Function (MF)DNA binding0.0000000000000013860InformativeDirect
Molecular Function (MF)transcription factor activity, sequence-specific DNA binding0.00000061420InformativeDirect
Molecular Function (MF)chromatin binding0.00000000048870Highly InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.07110.01053Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.71550.6008Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.17710Least InformativeInherited
Cellular Component (CC)chromosome0.000000000015430InformativeDirect

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 0 Least Informative Direct
Biological Process (BP) biological regulation 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.0007805 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00000000000001079 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.000000000000148 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.000002942 Least Informative Direct
Biological Process (BP) primary metabolic process 0.3914 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 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) regulation of multicellular organismal process 0.000001288 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0000001577 Moderately Informative Direct
Biological Process (BP) multi-organism process 0 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.00000000000005058 Moderately Informative Direct
Biological Process (BP) reproduction 0.0000000000000538 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0000000000001109 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0000000003225 Moderately Informative Direct
Biological Process (BP) immune system process 0.000000001534 Moderately Informative Direct
Biological Process (BP) response to biotic stimulus 0.000000008367 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.0000005127 Moderately Informative Direct
Biological Process (BP) defense response 0.000006369 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0001091 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.0001837 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.6222 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.4064 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.3082 Moderately Informative Inherited
Biological Process (BP) tissue development 0.0448 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 1 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) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8476 Moderately Informative Inherited
Biological Process (BP) single organism signaling 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.003236 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8264 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.4974 Moderately Informative Inherited
Biological Process (BP) animal organ development 0.01213 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.004114 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.01101 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) response to bacterium 0 Informative Direct
Biological Process (BP) immune response 0 Informative Direct
Biological Process (BP) regulation of cell differentiation 0 Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) defense response to other organism 0 Informative Direct
Biological Process (BP) central nervous system development 0.000000000000001925 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.00000000000001422 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.00000000000002606 Informative Direct
Biological Process (BP) single organism reproductive process 0.0000000000001403 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0.000000000001351 Informative Direct
Biological Process (BP) negative regulation of gene expression 0.0000000001026 Informative Direct
Biological Process (BP) regulation of nervous system development 0.000000001263 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.000000001349 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.0000007592 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.000002504 Informative Direct
Biological Process (BP) embryo development 0.00001021 Informative Direct
Biological Process (BP) transcription, DNA-templated 0.00001283 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.00001296 Informative Direct
Biological Process (BP) cell surface receptor signaling pathway 0.00001387 Informative Direct
Biological Process (BP) negative regulation of cellular biosynthetic process 0.00002393 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002229 Informative Direct
Biological Process (BP) regulation of hormone levels 0.0008386 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.7658 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.8679 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.005351 Informative Inherited
Biological Process (BP) negative regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.3799 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) regulation of cellular amide metabolic process 0.3304 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) growth 0.01238 Informative Inherited
Biological Process (BP) system process 1 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) reproductive system development 0.08512 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.7941 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.01009 Informative Inherited
Biological Process (BP) regulation of secretion 0.1069 Informative Inherited
Biological Process (BP) regulation of protein localization 0.4456 Informative Inherited
Biological Process (BP) regulation of peptide transport 0.1841 Informative Inherited
Biological Process (BP) animal organ morphogenesis 0.009527 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.3616 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) epithelium development 0.002076 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.08222 Informative Inherited
Biological Process (BP) hemopoiesis 0.214 Informative Inherited
Biological Process (BP) cell activation 0.5958 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.01195 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.3464 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.08442 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.9868 Informative Inherited
Biological Process (BP) locomotion 0.156 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 1 Informative Inherited
Biological Process (BP) response to metal ion 0.01333 Informative Inherited
Biological Process (BP) cell development 0.7922 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.1246 Informative Inherited
Biological Process (BP) circulatory system development 0.2388 Informative Inherited
Biological Process (BP) localization of cell 0.003263 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.5962 Informative Inherited
Biological Process (BP) chromatin assembly or disassembly 0.000000001916 Highly Informative Direct
Biological Process (BP) response to drug 0 Highly Informative Direct
Biological Process (BP) inflammatory response 0 Highly Informative Direct
Biological Process (BP) defense response to Gram-positive bacterium 0 Highly Informative Direct
Biological Process (BP) protein-DNA complex subunit organization 0 Highly Informative Direct
Biological Process (BP) spermatogenesis 0 Highly Informative Direct
Biological Process (BP) response to molecule of bacterial origin 0 Highly Informative Direct
Biological Process (BP) tube morphogenesis 0.0000000000003173 Highly Informative Direct
Biological Process (BP) digestion 0.0000000000008463 Highly Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.00000000001493 Highly Informative Direct
Biological Process (BP) sensory organ morphogenesis 0.00000000005191 Highly Informative Direct
Biological Process (BP) gene silencing 0.0000000001422 Highly Informative Direct
Biological Process (BP) gliogenesis 0.000000001132 Highly Informative Direct
Biological Process (BP) embryonic organ development 0.00000000209 Highly Informative Direct
Biological Process (BP) appendage development 0.00000001371 Highly Informative Direct
Biological Process (BP) forebrain development 0.00000001509 Highly Informative Direct
Biological Process (BP) cell-cell signaling 0.0000005631 Highly Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.000001365 Highly Informative Direct
Biological Process (BP) cell proliferation 0.000003203 Highly Informative Direct
Biological Process (BP) camera-type eye development 0.000005795 Highly Informative Direct
Biological Process (BP) pigmentation 0.00002335 Highly Informative Direct
Biological Process (BP) morphogenesis of an epithelium 0.00003039 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular transport 0.00004641 Highly Informative Direct
Biological Process (BP) regulation of binding 0.00004818 Highly Informative Direct
Biological Process (BP) sex differentiation 0.00005581 Highly Informative Direct
Biological Process (BP) negative regulation of RNA metabolic process 0.00009848 Highly Informative Direct
Biological Process (BP) epithelial cell differentiation 0.0001776 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 0.000424 Highly Informative Direct
Biological Process (BP) heart development 0.0005474 Highly Informative Direct
Biological Process (BP) DNA methylation or demethylation 0.0006624 Highly Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 0.1456 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.003866 Highly Informative Inherited
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.0203 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.2285 Highly Informative Inherited
Biological Process (BP) cell cycle checkpoint 0.3852 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.3232 Highly Informative Inherited
Biological Process (BP) response to mechanical stimulus 0.02578 Highly Informative Inherited
Biological Process (BP) cellular response to abiotic stimulus 0.1627 Highly Informative Inherited
Biological Process (BP) response to growth factor 0.2871 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.03278 Highly Informative Inherited
Biological Process (BP) kidney development 0.0333 Highly Informative Inherited
Biological Process (BP) developmental growth involved in morphogenesis 0.8607 Highly Informative Inherited
Biological Process (BP) negative regulation of nervous system development 0.01443 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.6284 Highly Informative Inherited
Biological Process (BP) positive regulation of secretion by cell 0.1257 Highly Informative Inherited
Biological Process (BP) negative regulation of establishment of protein localization 0.325 Highly Informative Inherited
Biological Process (BP) regulation of intracellular protein transport 0.004297 Highly Informative Inherited
Biological Process (BP) neuron development 1 Highly Informative Inherited
Biological Process (BP) negative regulation of cell development 0.1108 Highly Informative Inherited
Biological Process (BP) regulation of hormone secretion 0.03218 Highly Informative Inherited
Biological Process (BP) positive regulation of peptide secretion 0.1145 Highly Informative Inherited
Biological Process (BP) positive regulation of protein transport 0.1958 Highly Informative Inherited
Biological Process (BP) lymphocyte activation 0.002837 Highly Informative Inherited
Biological Process (BP) leukocyte differentiation 0.6989 Highly Informative Inherited
Biological Process (BP) second-messenger-mediated signaling 0.006235 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.02998 Highly Informative Inherited
Biological Process (BP) germ cell development 1 Highly Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Highly Informative Inherited
Biological Process (BP) mitochondrial gene expression 0.01031 Highly Informative Inherited
Biological Process (BP) cell growth 0.0481 Highly Informative Inherited
Biological Process (BP) DNA recombination 1 Highly Informative Inherited
Biological Process (BP) gastrulation 0.8006 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 0.9526 Moderately Informative Inherited
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) transcription factor activity, sequence-specific DNA binding 0 Informative Direct
Molecular Function (MF) protein dimerization activity 0.06717 Informative Inherited
Molecular Function (MF) macromolecular complex binding 1 Informative Inherited
Molecular Function (MF) chromatin binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) drug binding 0 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.00000000218 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 0.00000003645 Highly Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.09681 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) protein complex 0.9925 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.01053 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.6008 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.0000002415 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.001883 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.08915 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) extracellular space 0.00001734 Informative Direct
Cellular Component (CC) ribonucleoprotein granule 0.00008471 Informative Direct
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) chromatin 0.00000002313 Highly Informative Direct
Cellular Component (CC) pole plasm 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.000003523 Highly Informative Direct
Cellular Component (CC) histone deacetylase complex 0.0006209 Highly Informative Direct
Cellular Component (CC) protein serine/threonine phosphatase complex 0.002857 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

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processImmunity0.0000001919Moderately InformativeDirect
Biological processDNA damage0.000006257Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processWnt signaling pathway0InformativeDirect
Biological processInnate immunity0.000000000002619InformativeDirect
Biological processInflammatory response0.0000000007341InformativeDirect
Biological processNeurogenesis0.000000004047InformativeDirect
Biological processDNA repair0.00000003269InformativeDirect
Biological processChemotaxis0.000004166InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome0InformativeDirect
DiseaseMental retardation0.000459InformativeDirect
DomainRepeat0.0001385Least InformativeDirect
DomainCoiled coil0.000000274Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationCalmodulin-binding0InformativeDirect
Post-translational modificationChromatin regulator0.000000000001598InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0000000001901Least InformativeDirect
Post-translational modificationIsopeptide bond0.00000000000009767Moderately InformativeDirect
Post-translational modificationUbl conjugation0.00000000008419Moderately InformativeDirect
Post-translational modificationOxidation9.634e-16InformativeDirect
Post-translational modificationADP-ribosylation0.0000004416InformativeDirect

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) · 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) · UniProtKB KeyWords (KW) · Internal database links ]