SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


Histone-fold superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Histone-fold [ 47112]
Superfamily:   Histone-fold [ 47113] (4)
Families:   Nucleosome core histones [ 47114] (5)
  Archaeal histone [ 47129]
  TBP-associated factors, TAFs [ 47134] (13)
  Bacterial histone-fold protein [ 101318] (2)


Superfamily statistics
Genomes (655) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 27,761 39,243 82
Proteins 27,324 38,669 81


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular aromatic compound metabolic process0.0000000014380Least InformativeDirect
Biological Process (BP)nitrogen compound metabolic process0.0000043260.000000000006455Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process0.0000000061280.000000000384Least InformativeDirect
Biological Process (BP)heterocycle metabolic process0.0000000011850Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.000000000000050860.0000000000203Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.000000043110.000000000000007347Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.16650.00003129Least InformativeInherited
Biological Process (BP)response to stimulus0.094671Least InformativeInherited
Biological Process (BP)localization11Least InformativeInherited
Biological Process (BP)regulation of cellular process0.90910.3249Least InformativeInherited
Biological Process (BP)protein metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process0.91430.00003422Least InformativeInherited
Biological Process (BP)single-organism cellular process0.00000096270.02061Least InformativeInherited
Biological Process (BP)organelle organization00Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process0.000027670.00000000726Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.00020680.000000000001386Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process0.00010580.00003864Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.00019940.0000000003243Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis0.034850.0006446Moderately InformativeInherited
Biological Process (BP)multi-organism process0.01820.1888Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.78421Moderately InformativeInherited
Biological Process (BP)cellular localization11Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.0001240.007499Moderately InformativeInherited
Biological Process (BP)immune system process0.40661Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.51151Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.75180.00000001194Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.3750.0000000000005327Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.21360.0000000000003122Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.31820.000000000000172Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.49010.00000000004934Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process0.008510Moderately InformativeInherited
Biological Process (BP)gene expression0.78430.00000005971Moderately InformativeInherited
Biological Process (BP)reproduction0.0057520.2854Moderately InformativeInherited
Biological Process (BP)DNA metabolic process00.00000000002884InformativeDirect
Biological Process (BP)transcription, DNA-dependent0.000063740InformativeDirect
Biological Process (BP)response to DNA damage stimulus0.00000032310.0000005569InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly00InformativeDirect
Biological Process (BP)chromosome organization00InformativeDirect
Biological Process (BP)organelle assembly0.54180.3787InformativeInherited
Biological Process (BP)response to bacterium0.0001150.008674InformativeInherited
Biological Process (BP)protein localization to organelle0.056510.08463InformativeInherited
Biological Process (BP)defense response0.81980.7445InformativeInherited
Biological Process (BP)immune response0.33070.9904InformativeInherited
Biological Process (BP)peptidyl-amino acid modification0.013660.001819InformativeInherited
Biological Process (BP)cell cycle process0.071140.1043InformativeInherited
Biological Process (BP)cellular process involved in reproduction0.000011330.05114InformativeInherited
Biological Process (BP)internal protein amino acid acetylation0.0000010730.000000000002112Highly InformativeDirect
Biological Process (BP)chromosome segregation0.0000045080.000000000001979Highly InformativeDirect
Biological Process (BP)histone modification0.00002510.0000007647Highly InformativeDirect
Biological Process (BP)peptidyl-lysine modification0.000029320.0000000006169Highly InformativeDirect
Biological Process (BP)defense response to bacterium0.000049470.0001301Highly InformativeDirect
Biological Process (BP)DNA replication0.094120.7689Highly InformativeInherited
Biological Process (BP)humoral immune response0.0035710.01301Highly InformativeInherited
Biological Process (BP)transcription from RNA polymerase II promoter0.0068250.00002216Highly InformativeInherited
Biological Process (BP)innate immune response0.29880.5165Highly InformativeInherited
Biological Process (BP)meiosis0.0028940.01183Highly InformativeInherited
Biological Process (BP)DNA recombination11Highly InformativeInherited
Molecular Function (MF)binding0.000000000019210.0000000002811Least InformativeDirect
Molecular Function (MF)transferase activity11Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.89421Moderately InformativeInherited
Molecular Function (MF)nucleic acid binding transcription factor activity00InformativeDirect
Molecular Function (MF)DNA binding00InformativeDirect
Molecular Function (MF)chromatin binding0.0000010770.000156InformativeDirect
Molecular Function (MF)nucleotidyltransferase activity0.019490.04046InformativeInherited
Molecular Function (MF)transcription factor binding transcription factor activity0.00011810.00000001424Highly InformativeDirect
Molecular Function (MF)sequence-specific DNA binding transcription factor activity00Highly InformativeDirect
Molecular Function (MF)DNA polymerase activity0.000015050.00009823Highly InformativeDirect
Molecular Function (MF)transcription regulatory region DNA binding0.000000035860.0000001667Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.000000026240.0001453Least InformativeDirect
Cellular Component (CC)intracellular organelle part00Least InformativeDirect
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.031930.002755Least InformativeInherited
Cellular Component (CC)nuclear part00Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen00Moderately InformativeDirect
Cellular Component (CC)vesicle11Moderately InformativeInherited
Cellular Component (CC)extracellular region part0.00097480.01046Moderately InformativeInherited
Cellular Component (CC)chromosome00InformativeDirect
Cellular Component (CC)nucleoplasm part0.000011880InformativeDirect
Cellular Component (CC)extracellular membrane-bounded organelle0.10570.03095InformativeInherited
Cellular Component (CC)nuclear DNA-directed RNA polymerase complex0.99020.0000000006049InformativeInherited
Cellular Component (CC)chromatin0.00000064420.0000139Highly InformativeDirect
Cellular Component (CC)DNA polymerase complex0.000000038710.000000000008846Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.000000012760.0002612Highly 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) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.000000000006455 Least Informative Direct
Biological Process (BP) biosynthetic process 0.00003422 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.00003129 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.000000000384 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0000000000203 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000000000000007347 Least Informative Direct
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.3249 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.02061 Least Informative Inherited
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) gene expression 0.00000005971 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000002109 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.00000000726 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.00000001194 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0000000000005327 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.000000000001386 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0000000000003122 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.00003864 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000000003243 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.0006446 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.000000000000172 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.00000000004934 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.1888 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.007499 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.2854 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0.00000000002884 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0.0000005569 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0 Informative Direct
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) organelle assembly 0.3787 Informative Inherited
Biological Process (BP) response to bacterium 0.008674 Informative Inherited
Biological Process (BP) protein localization to organelle 0.08463 Informative Inherited
Biological Process (BP) defense response 0.7445 Informative Inherited
Biological Process (BP) immune response 0.9904 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.001819 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.05114 Informative Inherited
Biological Process (BP) cell cycle process 0.1043 Informative Inherited
Biological Process (BP) RNA processing 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.1236 Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.00002216 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 0.000000000002112 Highly Informative Direct
Biological Process (BP) chromosome segregation 0.000000000001979 Highly Informative Direct
Biological Process (BP) histone modification 0.0000007647 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0.0000000006169 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0.0001301 Highly Informative Direct
Biological Process (BP) DNA replication 0.7689 Highly Informative Inherited
Biological Process (BP) humoral immune response 0.01301 Highly Informative Inherited
Biological Process (BP) multi-organism cellular process 0.002759 Highly Informative Inherited
Biological Process (BP) innate immune response 0.5165 Highly Informative Inherited
Biological Process (BP) meiosis 0.01183 Highly Informative Inherited
Biological Process (BP) DNA recombination 1 Highly Informative Inherited
Biological Process (BP) RNA splicing 0.09086 Highly Informative Inherited
Biological Process (BP) mitosis 0.1348 Highly Informative Inherited
Molecular Function (MF) binding 0.0000000002811 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) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.4815 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) chromatin binding 0.000156 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0.09959 Informative Inherited
Molecular Function (MF) GTPase regulator activity 0.03123 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.04046 Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0.00000001424 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.0006564 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.0000000003825 Highly Informative Direct
Molecular Function (MF) DNA polymerase activity 0.00009823 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.0000001667 Highly Informative Direct
Molecular Function (MF) acetyltransferase activity 0.001802 Highly Informative Inherited
Molecular Function (MF) small GTPase regulator activity 0.003144 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0001453 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.002755 Least Informative Inherited
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) vesicle 1 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 0.01046 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) nucleoplasm part 0 Informative Direct
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 0.0000000006049 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.03095 Informative Inherited
Cellular Component (CC) kinetochore 0.0000422 Highly Informative Direct
Cellular Component (CC) chromatin 0.0000139 Highly Informative Direct
Cellular Component (CC) DNA polymerase complex 0.000000000008846 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.0002612 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blastocyst morphology0.007799Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.5346Least InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.00000000003072Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.00005892Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0002031Moderately InformativeDirect
Worm Phenotype (WP)organ system development variant0.012Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.01602Moderately InformativeInherited
Worm Phenotype (WP)cell death variant0.4618Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0InformativeDirect
Worm Phenotype (WP)meiotic chromosome organization variant0.0000000000007995InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.0000002643InformativeDirect
Worm Phenotype (WP)protruding vulva0.00003745InformativeDirect
Worm Phenotype (WP)cell corpse number variant0.005489InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.01066InformativeInherited
Worm Phenotype (WP)organism stress response variant0.08471InformativeInherited
Worm Phenotype (WP)body width variant0.2544InformativeInherited
Worm Phenotype (WP)diplotene progression during oogenesis variant0.2832InformativeInherited
Worm Phenotype (WP)body elongation variant0Highly InformativeDirect
Worm Phenotype (WP)pharyngeal development variant0.00000000000001717Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.0000000000002499Highly InformativeDirect
Worm Phenotype (WP)stress induced lethality increased0.0000001048Highly InformativeDirect
Worm Phenotype (WP)organism osmotic stress response variant0.000002574Highly InformativeDirect
Worm Phenotype (WP)chromosome condensation variant0.00001192Highly InformativeDirect
Worm Phenotype (WP)pathogen susceptibility increased0.00006252Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)cell cycle progression0.002133InformativeInherited
Yeast Phenotype (YP)cell cycle progression in G2 phase0.00008735Highly InformativeDirect
Yeast Phenotype (YP)budding0.0002806Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least 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)root system0.2379Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue0.7048Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.8912Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.9364Least InformativeInherited
Plant ANatomical entity (PAN)primordium0.0008924InformativeDirect
Plant ANatomical entity (PAN)root tip0.01274InformativeInherited
Plant ANatomical entity (PAN)lateral root primordium0.000006482Highly InformativeDirect
Plant ANatomical entity (PAN)lateral root0.00001515Highly InformativeDirect
Plant ANatomical entity (PAN)reproductive shoot apex0.00007867Highly InformativeDirect
Plant ANatomical entity (PAN)root meristem0.0001122Highly InformativeDirect
Plant ANatomical entity (PAN)shoot apical meristem0.000585Highly InformativeDirect
Plant structure DEvelopment stage (PDE)seedling development stage0.0000002424InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0.000000000009598Moderately InformativeDirect
Biological processDNA damage0.00001922Moderately InformativeDirect
Biological processCell cycle0.3847Moderately InformativeInherited
Biological processMitosis0.00000004209InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome0InformativeDirect
Cellular componentCentromere0Highly InformativeDirect
Cellular componentKinetochore0Highly InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0.4789Moderately InformativeInherited
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationAntimicrobial0.0000000003757InformativeDirect
Post-translational modificationChromatin regulator0.000000002834InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0007016InformativeDirect
Post-translational modificationAntibiotic0.0000000000002275Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationCitrullination0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009072 SSF47113 Protein matches
Abstract

Histones mediate DNA organisation and plays a dominant role in regulating eukaryotic transcription. The histone-fold consists of a core of three helices, where the long middle helix is flanked at each end by shorter ones. Proteins displaying this structure include the nucleosome core histones, which form octomers composed of two copies of each of the four histones, H2A, H2B, H3 and H4; archaeal histone, which possesses only the core domain part of eukaryotic histone; and the TATA-box binding protein (TBP)-associated factors (TAF), where the histone fold is a common motif for mediating TAF-TAF interactions. TAF proteins include TAF(II)18 and TAF(II)28, which form a heterodimer, TAF(II)42 and TAF(II)62, which form a heterotetramer similar to (H3-H4)2, and the negative cofactor 2 (NC2) alpha and beta chains, which form a heterodimer. The TAF proteins are a component of transcription factor IID (TFIID), along with the TBP protein. TFIID forms part of the pre-initiation complex on core promoter elements required for RNA polymerase II-dependent transcription. The TAF subunits of TFIID mediate transcriptional activation of subsets of eukaryotic genes. The NC2 complex mediates the inhibition of TATA-dependent transcription through interactions with TBP.


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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · 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 32 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 Histone-fold 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 32 hidden Markov models representing the Histone-fold 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]