SUPERFAMILY 1.75 HMM library and genome assignments server

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"Winged helix" DNA-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   DNA/RNA-binding 3-helical bundle [ 46688] (14)
Superfamily:   "Winged helix" DNA-binding domain [ 46785] (84)
Families:   Biotin repressor-like [ 46786] (2)
  LexA repressor, N-terminal DNA-binding domain [ 46789]
  Arginine repressor (ArgR), N-terminal DNA-binding domain [ 46792]
  Transcriptional repressor Rex, N-terminal domain [ 101007]
  CAP C-terminal domain-like [ 46796] (8)
  Lrp/AsnC-like transcriptional regulator N-terminal domain [ 68967] (4)
  ArsR-like transcriptional regulators [ 46801] (4)
  Transcriptional regulator IclR, N-terminal domain [ 74676]
  MarR-like transcriptional regulators [ 63379] (19)
  DNA-binding protein Mj223 [ 81690]
  Penicillinase repressor [ 101016] (3)
  GntR-like transcriptional regulators [ 46804] (4)
  N-terminal domain of Bacillus PurR [ 101021]
  Replication terminator protein (RTP) [ 46807]
  LysR-like transcriptional regulators [ 88979] (2)
  N-terminal domain of molybdate-dependent transcriptional regulator ModE [ 46810]
  Transcription factor MotA, activation domain [ 46813]
  Transcription factor E/IIe-alpha, N-terminal domain [ 101024]
  FUR-like [ 101027]
  Replication initiation protein [ 46816] (3)
  Helicase DNA-binding domain [ 46819] (4)
  RecQ helicase DNA-binding domain-like [ 101030] (3)
  SCF ubiquitin ligase complex WHB domain [ 74679] (3)
  C-terminal fragment of elongation factor SelB [ 74683]
  Restriction endonuclease FokI, N-terminal (recognition) domain [ 46824]
  TnsA endonuclease, C-terminal domain [ 46782]
  Plant O-methyltransferase, N-terminal domain [ 63475] (5)
  Linker histone H1/H5 [ 46827] (3)
  Forkhead DNA-binding domain [ 46832] (6)
  DNA-binding domain from rap30 [ 46841]
  C-terminal domain of the rap74 subunit of TFIIF [ 63480]
  C-terminal domain of RPA32 [ 46844]
  DEP domain [ 63483] (4)
  Cell cycle transcription factor e2f-dp [ 46847] (2)
  The central core domain of TFIIE beta [ 46850]
  Z-DNA binding domain [ 46853] (4)
  P4 origin-binding domain-like [ 46856] (2)
  ets domain [ 46859] (8)
  Heat-shock transcription factor [ 46873]
  Interferon regulatory factor [ 46877] (3)
  39 kda initiator binding protein, IBP39, N-terminal domain [ 101045]
  Iron-dependent repressor protein [ 46882] (3)
  Dissimilatory sulfite reductase DsvD [ 101048]
  La domain [ 101051] (2)
  Methionine aminopeptidase, insert domain [ 46887]
  PCI domain (PINT motif) [ 109671] (2)
  F93-like [ 109674] (3)
  Archaeal DNA-binding protein [ 109677]
  TrmB-like [ 109680] (2)
  Heat-inducible transcription repressor HrcA, N-terminal domain [ 109683]
  DNA replication factor Cdt1 [ 109686]
  Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain [ 109689]
  Vacuolar sorting protein domain [ 109692] (3)
  Transcriptional regulator Rrf2 [ 109699] (2)
  Rio2 serine protein kinase N-terminal domain [ 109702]
  Rad21/Rec8-like [ 116795]
  Hypothetical protein PH1932 [ 116798]
  An Obfc1 domain [ 116801]
  ScpB/YpuH-like [ 116804]
  PadR-like [ 116807] (3)
  Hypothetical protein YhgG [ 116812]
  ROK associated domain [ 140279] (3)
  PF1790-like [ 140286]
  MukF N-terminal domain-like [ 140289]
  CodY HTH domain [ 140292]
  FtsK C-terminal domain-like [ 140295]
  Nudix-associated domain [ 140299] (2)
  HxlR-like [ 140304] (5)
  Marine metagenome family WH1 [ 158296]
  ReutB4095-like [ 158299]
  PH0730 N-terminal domain-like [ 158302]
  FaeA-like [ 158305]
  STY4665 C-terminal domain-like [ 158308]
  PSPTO2686-like [ 158311]
  RHA1 ro06458-like [ 158314]
  YjcQ-like [ 158317]
  F112-like [ 158320]
  MerB N-terminal domain-like [ 158323]
  CED-4 C-terminal domain-like [ 158326]
  ELL N2 domain-like [ 158329]
  PF0610-like [ 158332]
  Rv2827c N-terminal domain-like [ 158335]
  Rps19E-like [ 158338]
  RPO3F domain-like [ 158341]


Superfamily statistics
Genomes (3,229) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 270,271 1,600,580 304
Proteins 262,297 1,561,444 284


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 regulation00Least InformativeDirect
Biological Process (BP)response to stimulus10.9076Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process10.000000003701Least InformativeInherited
Biological Process (BP)biosynthetic process0.96830.000000552Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)macromolecule metabolic process10.0000000001319Least InformativeInherited
Biological Process (BP)primary metabolic process10.6035Least InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process00Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.00000000000069610Moderately InformativeDirect
Biological Process (BP)negative regulation of metabolic process0.0000000090270.0006735Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.000011590.00005337Moderately InformativeDirect
Biological Process (BP)peptide metabolic process0.00025280.0001032Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00088180.2266Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process0.0016450Moderately InformativeInherited
Biological Process (BP)gene expression0.029380.00000000003593Moderately InformativeInherited
Biological Process (BP)negative regulation of macromolecule biosynthetic process0.0000000000000031440.00001665InformativeDirect
Biological Process (BP)negative regulation of cellular biosynthetic process0.00000000000001780.0001687InformativeDirect
Biological Process (BP)negative regulation of gene expression0.00000000051580.1733InformativeInherited
Biological Process (BP)negative regulation of RNA metabolic process00.000000000913Highly InformativeDirect
Biological Process (BP)response to arsenic-containing substance0.00033320.0004488Highly InformativeDirect
Molecular Function (MF)binding0.0010Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)DNA binding00InformativeDirect
Molecular Function (MF)transcription factor activity, sequence-specific DNA binding00InformativeDirect
Molecular Function (MF)transcription regulatory region DNA binding00Highly InformativeDirect
Molecular Function (MF)sequence-specific DNA binding00.0000000002263Highly InformativeDirect
Molecular Function (MF)double-stranded DNA binding00.004884Highly InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.016850.004051Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.84660.4844Least InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)ribosome0.00000000017270.2177Moderately InformativeInherited
Cellular Component (CC)cytosolic part0.000000001870.1341Moderately InformativeInherited
Cellular Component (CC)protein-DNA complex00InformativeDirect
Cellular Component (CC)small ribosomal subunit0.000000000000022580.00009276InformativeDirect
Cellular Component (CC)cytosolic ribosome0.0029890.02011InformativeInherited
Cellular Component (CC)cytosolic small ribosomal subunit00.00000004048Highly 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) biological regulation 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0.000000552 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.0000000001319 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.000000003701 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000000468 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.00000088 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000036 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0002123 Least Informative Direct
Biological Process (BP) primary metabolic process 0.6035 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.9076 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
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 macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0006735 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00005337 Moderately Informative Direct
Biological Process (BP) peptide metabolic process 0.0001032 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0.00000000003593 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.00000000003672 Moderately Informative Direct
Biological Process (BP) tissue development 0.0005248 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.0006993 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.2128 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.6474 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.04232 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) defense response 1 Moderately Informative Inherited
Biological Process (BP) response to biotic stimulus 0.8651 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.01763 Moderately Informative Inherited
Biological Process (BP) animal organ development 0.001667 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.08548 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.02438 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.1678 Moderately Informative Inherited
Biological Process (BP) immune system process 0.01223 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.02961 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.8048 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.997 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.9407 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.7476 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1368 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) amide biosynthetic process 0.2266 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.001393 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.6156 Moderately Informative Inherited
Biological Process (BP) cell communication 0.1117 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.07109 Moderately Informative Inherited
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.00001665 Informative Direct
Biological Process (BP) negative regulation of cellular biosynthetic process 0.0001687 Informative Direct
Biological Process (BP) embryo development 0.00000001986 Informative Direct
Biological Process (BP) response to extracellular stimulus 0.0002613 Informative Direct
Biological Process (BP) transcription, DNA-templated 0 Informative Direct
Biological Process (BP) proteolysis 0.000000000000007296 Informative Direct
Biological Process (BP) cell cycle process 0.0000000000002136 Informative Direct
Biological Process (BP) chromosome organization 0.0000000000003322 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.0000000003089 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0.0000001004 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.00000751 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.003022 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) response to oxidative stress 0.6871 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) protein oligomerization 0.07158 Informative Inherited
Biological Process (BP) hemopoiesis 0.7488 Informative Inherited
Biological Process (BP) locomotion 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 1 Informative Inherited
Biological Process (BP) regulation of growth 1 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.001414 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.9469 Informative Inherited
Biological Process (BP) growth 1 Informative Inherited
Biological Process (BP) defense response to other organism 0.1609 Informative Inherited
Biological Process (BP) immune effector process 0.8322 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.7914 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) regulation of transferase activity 1 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.06343 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.05158 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) organelle localization 0.9703 Informative Inherited
Biological Process (BP) vesicle-mediated transport 1 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.7519 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.1733 Informative Inherited
Biological Process (BP) regulation of proteolysis 0.1812 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) cellular protein complex assembly 1 Informative Inherited
Biological Process (BP) response to acid chemical 0.966 Informative Inherited
Biological Process (BP) actin cytoskeleton organization 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.5519 Informative Inherited
Biological Process (BP) regulation of catabolic process 1 Informative Inherited
Biological Process (BP) DNA metabolic process 0.01571 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 1 Informative Inherited
Biological Process (BP) protein localization to organelle 0.06116 Informative Inherited
Biological Process (BP) immune response 0.9795 Informative Inherited
Biological Process (BP) regulation of immune response 1 Informative Inherited
Biological Process (BP) regulation of defense response 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.3435 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.01147 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.02837 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) intracellular transport 1 Informative Inherited
Biological Process (BP) single-organism cellular localization 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 1 Informative Inherited
Biological Process (BP) negative regulation of cell communication 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) epithelium development 0.01686 Informative Inherited
Biological Process (BP) regulation of cell differentiation 1 Informative Inherited
Biological Process (BP) cell death 0.06056 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.05443 Informative Inherited
Biological Process (BP) supramolecular fiber organization 1 Informative Inherited
Biological Process (BP) localization of cell 0.4114 Informative Inherited
Biological Process (BP) central nervous system development 0.5003 Informative Inherited
Biological Process (BP) response to temperature stimulus 0.02912 Informative Inherited
Biological Process (BP) response to radiation 0.7604 Informative Inherited
Biological Process (BP) system process 1 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 0.008401 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.1851 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.6989 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.9492 Informative Inherited
Biological Process (BP) behavior 1 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) generation of neurons 0.9929 Informative Inherited
Biological Process (BP) tRNA metabolic process 0.9671 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 1 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.1427 Informative Inherited
Biological Process (BP) reproductive system development 1 Informative Inherited
Biological Process (BP) organelle assembly 0.09147 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.05512 Informative Inherited
Biological Process (BP) single organism reproductive process 0.01139 Informative Inherited
Biological Process (BP) circulatory system development 0.0563 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.07701 Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 0.000000000913 Highly Informative Direct
Biological Process (BP) response to arsenic-containing substance 0.0004488 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) cellular protein catabolic process 0.000000000000003734 Highly Informative Direct
Biological Process (BP) regulation of hemopoiesis 0.00000000000003101 Highly Informative Direct
Biological Process (BP) epithelial cell differentiation 0.000000008224 Highly Informative Direct
Biological Process (BP) response to virus 0.0000000441 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.00000005927 Highly Informative Direct
Biological Process (BP) cell cycle checkpoint 0.0000001036 Highly Informative Direct
Biological Process (BP) embryonic organ development 0.0000006463 Highly Informative Direct
Biological Process (BP) protein-DNA complex subunit organization 0.0000006729 Highly Informative Direct
Biological Process (BP) modification-dependent macromolecule catabolic process 0.000001535 Highly Informative Direct
Biological Process (BP) mitotic cell cycle phase transition 0.000008811 Highly Informative Direct
Biological Process (BP) regulation of G-protein coupled receptor protein signaling pathway 0.0000175 Highly Informative Direct
Biological Process (BP) chromatin assembly or disassembly 0.00002249 Highly Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.00003212 Highly Informative Direct
Biological Process (BP) indole-containing compound biosynthetic process 0.0000545 Highly Informative Direct
Biological Process (BP) protein homotrimerization 0.0000972 Highly Informative Direct
Biological Process (BP) response to heat 0.0001713 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0.0001887 Highly Informative Direct
Biological Process (BP) camera-type eye development 0.000196 Highly Informative Direct
Biological Process (BP) positive regulation of proteolysis 0.0002669 Highly Informative Direct
Biological Process (BP) nuclear division 0.0002814 Highly Informative Direct
Biological Process (BP) cellular response to extracellular stimulus 0.0005898 Highly Informative Direct
Biological Process (BP) cell proliferation 0.0006205 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 0.0006984 Highly Informative Direct
Biological Process (BP) regulation of lymphocyte proliferation 0.3061 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 1 Highly Informative Inherited
Biological Process (BP) protein modification by small protein conjugation 1 Highly Informative Inherited
Biological Process (BP) regulation of chromosome segregation 0.09682 Highly Informative Inherited
Biological Process (BP) negative regulation of growth 1 Highly Informative Inherited
Biological Process (BP) cellular response to abiotic stimulus 0.5956 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.6181 Highly Informative Inherited
Biological Process (BP) myeloid cell differentiation 0.005173 Highly Informative Inherited
Biological Process (BP) forebrain development 0.001712 Highly Informative Inherited
Biological Process (BP) microtubule-based movement 1 Highly Informative Inherited
Biological Process (BP) cell projection assembly 0.001723 Highly Informative Inherited
Biological Process (BP) regulation of microtubule-based process 1 Highly Informative Inherited
Biological Process (BP) developmental growth involved in morphogenesis 1 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.09144 Highly Informative Inherited
Biological Process (BP) regulation of cell division 0.001443 Highly Informative Inherited
Biological Process (BP) negative regulation of transferase activity 0.04468 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.1455 Highly Informative Inherited
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.7364 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.4557 Highly Informative Inherited
Biological Process (BP) establishment of organelle localization 1 Highly Informative Inherited
Biological Process (BP) Golgi vesicle transport 1 Highly Informative Inherited
Biological Process (BP) positive regulation of mitotic cell cycle 0.1783 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.004737 Highly Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle phase transition 0.01036 Highly Informative Inherited
Biological Process (BP) negative regulation of homeostatic process 0.9758 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.001982 Highly Informative Inherited
Biological Process (BP) negative regulation of cytokine production 0.9322 Highly Informative Inherited
Biological Process (BP) plasma membrane bounded cell projection organization 0.003345 Highly Informative Inherited
Biological Process (BP) histone modification 0.5883 Highly Informative Inherited
Biological Process (BP) peptidyl-lysine modification 0.9056 Highly Informative Inherited
Biological Process (BP) response to amino acid 0.09576 Highly Informative Inherited
Biological Process (BP) actomyosin structure organization 1 Highly Informative Inherited
Biological Process (BP) kidney development 0.3593 Highly Informative Inherited
Biological Process (BP) innate immune response 0.1519 Highly Informative Inherited
Biological Process (BP) regulation of toll-like receptor signaling pathway 0.002376 Highly Informative Inherited
Biological Process (BP) regulation of mitotic nuclear division 1 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.2836 Highly Informative Inherited
Biological Process (BP) negative regulation of sequence-specific DNA binding transcription factor activity 0.1767 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.1311 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.09395 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.8605 Highly Informative Inherited
Biological Process (BP) leukocyte differentiation 0.09361 Highly Informative Inherited
Biological Process (BP) cellular hormone metabolic process 0.004178 Highly Informative Inherited
Biological Process (BP) hormone biosynthetic process 0.001092 Highly Informative Inherited
Biological Process (BP) actin filament organization 1 Highly Informative Inherited
Biological Process (BP) cell-cell signaling 0.05923 Highly Informative Inherited
Biological Process (BP) tube morphogenesis 0.8435 Highly Informative Inherited
Biological Process (BP) single-organism behavior 0.4797 Highly Informative Inherited
Biological Process (BP) nervous system process 0.9181 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.005815 Highly Informative Inherited
Biological Process (BP) response to peptide hormone 0.07417 Highly Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Highly Informative Inherited
Biological Process (BP) neuron development 0.7387 Highly Informative Inherited
Biological Process (BP) germ cell development 0.1746 Highly Informative Inherited
Biological Process (BP) female gamete generation 1 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 1 Highly Informative Inherited
Biological Process (BP) apoptotic process 0.01417 Highly Informative Inherited
Biological Process (BP) cellular component disassembly 0.283 Highly Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.6323 Highly Informative Inherited
Biological Process (BP) regulation of production of molecular mediator of immune response 0.7236 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte mediated immunity 0.247 Highly Informative Inherited
Biological Process (BP) muscle tissue development 1 Highly Informative Inherited
Biological Process (BP) muscle organ development 1 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 1 Highly Informative Inherited
Biological Process (BP) gastrulation 0.003418 Highly Informative Inherited
Biological Process (BP) spermatogenesis 0.06815 Highly Informative Inherited
Biological Process (BP) vesicle organization 0.004556 Highly Informative Inherited
Biological Process (BP) endomembrane system organization 1 Highly Informative Inherited
Biological Process (BP) cellular component assembly involved in morphogenesis 0.2442 Highly Informative Inherited
Biological Process (BP) DNA catabolic process 0.01315 Highly Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.06049 Highly Informative Inherited
Biological Process (BP) response to nutrient levels 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) molecular function regulator 1 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 1 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 1 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) transferase activity, transferring one-carbon groups 0.0000004338 Informative Direct
Molecular Function (MF) enzyme binding 0.3069 Informative Inherited
Molecular Function (MF) macromolecular complex binding 1 Informative Inherited
Molecular Function (MF) ribonucleotide binding 1 Informative Inherited
Molecular Function (MF) purine nucleotide binding 1 Informative Inherited
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 1 Informative Inherited
Molecular Function (MF) ATPase activity 1 Informative Inherited
Molecular Function (MF) enzyme activator activity 0.08815 Informative Inherited
Molecular Function (MF) ligase activity 1 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.0000000002263 Highly Informative Direct
Molecular Function (MF) chromatin binding 0.000000000003351 Highly Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0.0000000001606 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000000006348 Highly Informative Direct
Molecular Function (MF) GTPase regulator activity 0.0007529 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.1065 Highly Informative Inherited
Molecular Function (MF) protein phosphatase binding 0.2103 Highly Informative Inherited
Molecular Function (MF) single-stranded DNA binding 1 Highly Informative Inherited
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 1 Highly Informative Inherited
Molecular Function (MF) double-stranded DNA binding 0.004884 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.00000000001364 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.004051 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.4844 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0.00000000000089 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.000000000000003036 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.2099 Moderately Informative Inherited
Cellular Component (CC) vesicle 1 Moderately Informative Inherited
Cellular Component (CC) ribosome 0.2177 Moderately Informative Inherited
Cellular Component (CC) cytosolic part 0.1341 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) endomembrane system 1 Moderately Informative Inherited
Cellular Component (CC) whole membrane 1 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 1 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 1 Moderately Informative Inherited
Cellular Component (CC) protein-DNA complex 0 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.00009276 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) ubiquitin ligase complex 0.0000000002213 Informative Direct
Cellular Component (CC) ribonucleoprotein granule 0.5667 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.6903 Informative Inherited
Cellular Component (CC) endosome 1 Informative Inherited
Cellular Component (CC) cytosolic ribosome 0.02011 Informative Inherited
Cellular Component (CC) microtubule cytoskeleton 1 Informative Inherited
Cellular Component (CC) supramolecular polymer 1 Informative Inherited
Cellular Component (CC) transferase complex, transferring phosphorus-containing groups 1 Informative Inherited
Cellular Component (CC) cytoplasmic vesicle part 0.9255 Informative Inherited
Cellular Component (CC) cytosolic small ribosomal subunit 0.00000004048 Highly Informative Direct
Cellular Component (CC) peptidase complex 0 Highly Informative Direct
Cellular Component (CC) RNA polymerase II transcription factor complex 0.00000000006451 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.000001014 Highly Informative Direct
Cellular Component (CC) protein acetyltransferase complex 0.3025 Highly Informative Inherited
Cellular Component (CC) nuclear body 0.007845 Highly Informative Inherited
Cellular Component (CC) spindle 0.2441 Highly Informative Inherited
Cellular Component (CC) small nuclear ribonucleoprotein complex 0.8496 Highly Informative Inherited
Cellular Component (CC) replisome 0.4426 Highly Informative Inherited
Cellular Component (CC) endosome membrane 0.004114 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)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Ligases1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups1Moderately InformativeInherited
Enzyme Commission (EC)Methyltransferases0.6492Moderately InformativeInherited
Enzyme Commission (EC)Phenylalanine--tRNA ligase0.0000008665InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0.00009867InformativeDirect
Enzyme Commission (EC)Aminopeptidases0.0003545InformativeDirect
Enzyme Commission (EC)Sole sub-subclass for lyases that do not belong in1InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processDNA damage0Moderately InformativeDirect
Biological processCell cycle0Moderately InformativeDirect
Biological processDifferentiation0.00000000001773Moderately InformativeDirect
Biological processVirulence0.0002053Moderately InformativeDirect
Biological processAmino-acid biosynthesis1Moderately InformativeInherited
Biological processStress response0InformativeDirect
Biological processDNA recombination0InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processDNA repair0.0000000258InformativeDirect
Biological processMeiosis0.0002027InformativeDirect
Biological processNodulation0Highly InformativeDirect
Biological processSOS response0Highly InformativeDirect
Biological processDNA condensation0Highly InformativeDirect
Biological processArginine biosynthesis0Highly InformativeDirect
Biological processChromosome partition0Highly InformativeDirect
Biological processCilium biogenesis/degradation0.00000000000008241Highly InformativeDirect
Biological processAntiviral defense0.0000007836Highly InformativeDirect
Biological processAlkaloid metabolism0.00008142Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome0InformativeDirect
Cellular componentProteasome0Highly InformativeDirect
Cellular componentCentromere0.00007583Highly InformativeDirect
Coding sequence diversityChromosomal rearrangement0.000006819InformativeDirect
DiseaseProto-oncogene0.0000000000001263Moderately InformativeDirect
DiseaseDwarfism0.000989InformativeDirect
Molecular functionNucleotide-binding1Least InformativeInherited
Molecular functionMetal-binding1Least InformativeInherited
Molecular function2Fe-2S0.00000000001179InformativeDirect
Molecular functioncAMP-binding0.000000000000144Highly InformativeDirect
Molecular functionMercury0.0000000002385Highly InformativeDirect
Molecular functioncAMP0.000000000836Highly InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationProtease1Moderately InformativeInherited
Post-translational modificationHelicase0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0003267InformativeDirect
Post-translational modificationAminopeptidase0Highly InformativeDirect
Post-translational modificationSignal transduction inhibitor0.0000000006723Highly InformativeDirect
Post-translational modificationAcetylation0.00000000004693Least InformativeDirect
Post-translational modificationPhosphoprotein0.00000003662Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationAutocatalytic cleavage0InformativeDirect
Post-translational modificationCitrullination0Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · 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 208 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 "Winged helix" DNA-binding domain 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 208 hidden Markov models representing the "Winged helix" DNA-binding domain 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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]