SUPERFAMILY 1.75 HMM library and genome assignments server


HLH, helix-loop-helix DNA-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   HLH-like [ 47458] (2)
Superfamily:   HLH, helix-loop-helix DNA-binding domain [ 47459]
Families:   HLH, helix-loop-helix DNA-binding domain [ 47460] (8)


Superfamily statistics
Genomes (407) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 20,942 19,096 13
Proteins 20,900 19,053 13


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

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)developmental process00Least InformativeDirect
Biological Process (BP)multicellular organismal process3.478e-140Least InformativeDirect
Biological Process (BP)regulation of cellular process1.139e-110Least InformativeDirect
Biological Process (BP)response to stimulus1.851e-050Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.0025130Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0020320Least InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process00Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of developmental process3.012e-081.732e-13Moderately InformativeDirect
Biological Process (BP)regulation of multicellular organismal process9.525e-076.314e-06Moderately InformativeDirect
Biological Process (BP)single-organism developmental process6.138e-050Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.012390.438Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.0095670.02387Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.01820Moderately InformativeInherited
Biological Process (BP)tissue development0.1726.09e-06Moderately InformativeInherited
Biological Process (BP)organ development0.12622.65e-10Moderately InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.13781Moderately InformativeInherited
Biological Process (BP)system process0.45791Moderately InformativeInherited
Biological Process (BP)cell differentiation0.3533.71e-05Moderately InformativeInherited
Biological Process (BP)nervous system development4.541e-050.1266Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.31611.595e-12Moderately InformativeInherited
Biological Process (BP)generation of neurons04.137e-07InformativeDirect
Biological Process (BP)embryonic morphogenesis5.534e-075.369e-06InformativeDirect
Biological Process (BP)negative regulation of developmental process9.049e-061.397e-10InformativeDirect
Biological Process (BP)organ morphogenesis5.319e-055.653e-06InformativeDirect
Biological Process (BP)embryonic organ development5.751e-054.237e-13InformativeDirect
Biological Process (BP)regulation of cell cycle9.268e-051InformativeInherited
Biological Process (BP)gland development0.0020595.716e-06InformativeInherited
Biological Process (BP)epithelium development0.30510.09737InformativeInherited
Biological Process (BP)blood circulation4.542e-100.113InformativeInherited
Biological Process (BP)regulation of nervous system development0.00046650.01876InformativeInherited
Biological Process (BP)regulation of cell development0.010180.03288InformativeInherited
Biological Process (BP)response to light stimulus5.035e-051InformativeInherited
Biological Process (BP)negative regulation of cell differentiation1.427e-061.426e-09Highly InformativeDirect
Biological Process (BP)cell fate commitment1.182e-050Highly InformativeDirect
Biological Process (BP)regulation of neural precursor cell proliferation4.38e-090.00766Highly InformativeInherited
Biological Process (BP)negative regulation of cell proliferation0.0013211Highly InformativeInherited
Biological Process (BP)positive regulation of cell cycle process1.934e-051Highly InformativeInherited
Biological Process (BP)mammary gland alveolus development6.042e-070.001478Highly InformativeInherited
Biological Process (BP)mammary gland epithelium development4.415e-060.02747Highly InformativeInherited
Biological Process (BP)embryonic organ morphogenesis0.001180.002186Highly InformativeInherited
Biological Process (BP)regulation of blood pressure7.982e-100.1097Highly InformativeInherited
Biological Process (BP)aging0.00031550.6358Highly InformativeInherited
Molecular Function (MF)binding0.0041390Least InformativeInherited
Molecular Function (MF)nucleic acid binding0.0052010Moderately InformativeInherited
Molecular Function (MF)nucleic acid binding transcription factor activity2.366e-110InformativeDirect
Molecular Function (MF)DNA binding0.00039390InformativeDirect
Molecular Function (MF)protein dimerization activity0.063550InformativeInherited
Molecular Function (MF)sequence-specific DNA binding transcription factor activity2.003e-110Highly InformativeDirect
Molecular Function (MF)transcription factor binding1.427e-070Highly InformativeDirect
Molecular Function (MF)protein heterodimerization activity6.31e-060Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.047120Least InformativeInherited

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) developmental process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 4.42e-10 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 7.729e-06 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 1.466e-05 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0001224 Least Informative Direct
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.06513 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.01378 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.05058 Least Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 1.732e-13 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 6.314e-06 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) organ development 2.65e-10 Moderately Informative Direct
Biological Process (BP) tissue development 6.09e-06 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 1.595e-12 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.71e-05 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) reproduction 1.06e-06 Moderately Informative Direct
Biological Process (BP) homeostatic process 1.308e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.0008949 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.438 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.02387 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.0653 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.01418 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.1266 Moderately Informative Inherited
Biological Process (BP) regulation of programmed cell death 0.5944 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.01292 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.601 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.0838 Moderately Informative Inherited
Biological Process (BP) generation of neurons 4.137e-07 Informative Direct
Biological Process (BP) embryonic morphogenesis 5.369e-06 Informative Direct
Biological Process (BP) negative regulation of developmental process 1.397e-10 Informative Direct
Biological Process (BP) organ morphogenesis 5.653e-06 Informative Direct
Biological Process (BP) embryonic organ development 4.237e-13 Informative Direct
Biological Process (BP) gland development 5.716e-06 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of developmental process 4.575e-06 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 5.263e-07 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) regulation of peptidase activity 1.477e-12 Informative Direct
Biological Process (BP) chromosome organization 1.035e-11 Informative Direct
Biological Process (BP) response to lipid 4.514e-09 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 1.559e-07 Informative Direct
Biological Process (BP) sensory organ development 1.815e-07 Informative Direct
Biological Process (BP) response to hormone stimulus 2.179e-05 Informative Direct
Biological Process (BP) muscle structure development 4.19e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.000114 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0.0002095 Informative Direct
Biological Process (BP) response to light stimulus 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.02207 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.05865 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.4283 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.62 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.9783 Informative Inherited
Biological Process (BP) cardiovascular system development 0.3737 Informative Inherited
Biological Process (BP) cellular component movement 1 Informative Inherited
Biological Process (BP) localization of cell 0.2659 Informative Inherited
Biological Process (BP) locomotion 0.8034 Informative Inherited
Biological Process (BP) reproductive structure development 0.3559 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 1 Informative Inherited
Biological Process (BP) cation homeostasis 1 Informative Inherited
Biological Process (BP) regulation of secretion 0.001454 Informative Inherited
Biological Process (BP) cell projection organization 1 Informative Inherited
Biological Process (BP) epithelium development 0.09737 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.0485 Informative Inherited
Biological Process (BP) positive regulation of cell proliferation 0.4956 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) blood circulation 0.113 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.01591 Informative Inherited
Biological Process (BP) response to oxidative stress 0.8258 Informative Inherited
Biological Process (BP) regulation of growth 1 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 1 Informative Inherited
Biological Process (BP) transmission of nerve impulse 1 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.9212 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.9588 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.7776 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.03362 Informative Inherited
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) response to nutrient levels 0.02345 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.1148 Informative Inherited
Biological Process (BP) central nervous system development 0.02441 Informative Inherited
Biological Process (BP) cell activation 0.871 Informative Inherited
Biological Process (BP) regulation of system process 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) muscle tissue development 0.04962 Informative Inherited
Biological Process (BP) regulation of cell development 0.03288 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.01876 Informative Inherited
Biological Process (BP) cell death 0.02 Informative Inherited
Biological Process (BP) regulation of cytokine production 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) pigment metabolic process 0.2394 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.8268 Informative Inherited
Biological Process (BP) regulation of body fluid levels 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) cellular chemical homeostasis 0.148 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.0978 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.9142 Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1.426e-09 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 5.23e-07 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 0 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) response to hypoxia 0 Highly Informative Direct
Biological Process (BP) positive regulation of peptidase activity 0 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0 Highly Informative Direct
Biological Process (BP) regulation of myeloid cell differentiation 1.545e-13 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 3.909e-12 Highly Informative Direct
Biological Process (BP) mesenchyme development 4.445e-11 Highly Informative Direct
Biological Process (BP) cellular response to alcohol 5.158e-11 Highly Informative Direct
Biological Process (BP) histone modification 1.856e-08 Highly Informative Direct
Biological Process (BP) placenta development 2.276e-08 Highly Informative Direct
Biological Process (BP) stem cell development 4.209e-08 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 6.213e-08 Highly Informative Direct
Biological Process (BP) cellular response to organic cyclic compound 1.207e-07 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 1.865e-07 Highly Informative Direct
Biological Process (BP) regulation of binding 2.869e-07 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 1.018e-06 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 6.946e-06 Highly Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 8.197e-06 Highly Informative Direct
Biological Process (BP) xenobiotic metabolic process 1.682e-05 Highly Informative Direct
Biological Process (BP) neural tube development 7.307e-05 Highly Informative Direct
Biological Process (BP) positive regulation of epithelial cell proliferation 0.0001355 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.0002402 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0002574 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0.0003091 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0003623 Highly Informative Direct
Biological Process (BP) collagen metabolic process 0.0006231 Highly Informative Direct
Biological Process (BP) muscle organ development 0.0006798 Highly Informative Direct
Biological Process (BP) lactation 0.0007924 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) regulation of neural precursor cell proliferation 0.00766 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 1 Highly Informative Inherited
Biological Process (BP) regulation of epithelial cell differentiation 0.00733 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.9493 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.1232 Highly Informative Inherited
Biological Process (BP) renal system development 0.4548 Highly Informative Inherited
Biological Process (BP) cardiocyte differentiation 0.2585 Highly Informative Inherited
Biological Process (BP) mammary gland alveolus development 0.001478 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.1266 Highly Informative Inherited
Biological Process (BP) mammary gland epithelium development 0.02747 Highly Informative Inherited
Biological Process (BP) lung development 0.001298 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.3815 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 1 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.022 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.002186 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.1191 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular catabolic process 1 Highly Informative Inherited
Biological Process (BP) regulation of blood pressure 0.1097 Highly Informative Inherited
Biological Process (BP) regulation of wound healing 0.05296 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 1 Highly Informative Inherited
Biological Process (BP) inner ear development 0.389 Highly Informative Inherited
Biological Process (BP) epidermal cell differentiation 0.3706 Highly Informative Inherited
Biological Process (BP) carbohydrate homeostasis 0.07285 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 0.8484 Highly Informative Inherited
Biological Process (BP) positive regulation of peptidyl-tyrosine phosphorylation 0.01014 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 1 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.04189 Highly Informative Inherited
Biological Process (BP) artery morphogenesis 0.006818 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.04225 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.7081 Highly Informative Inherited
Biological Process (BP) endocrine system development 0.06916 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to growth factor stimulus 1 Highly Informative Inherited
Biological Process (BP) development of primary female sexual characteristics 0.9234 Highly Informative Inherited
Biological Process (BP) extracellular matrix organization 0.1722 Highly Informative Inherited
Biological Process (BP) glial cell differentiation 0.0806 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.681 Highly Informative Inherited
Biological Process (BP) cellular response to radiation 0.6866 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.4324 Highly Informative Inherited
Biological Process (BP) gonad development 0.02474 Highly Informative Inherited
Biological Process (BP) development of primary male sexual characteristics 0.1685 Highly Informative Inherited
Biological Process (BP) microtubule-based movement 0.1636 Highly Informative Inherited
Biological Process (BP) aging 0.6358 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.8648 Highly Informative Inherited
Biological Process (BP) retina development in camera-type eye 0.007092 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.004373 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.01827 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.2541 Highly Informative Inherited
Biological Process (BP) ossification 0.1133 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.05464 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) protein dimerization activity 0 Informative Direct
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) enzyme binding 0.4876 Informative Inherited
Molecular Function (MF) receptor binding 1 Informative Inherited
Molecular Function (MF) receptor activity 1 Informative Inherited
Molecular Function (MF) molecular transducer activity 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring acyl groups 0.567 Informative Inherited
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 0 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) protein complex binding 3.696e-06 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0.2135 Highly Informative Inherited
Molecular Function (MF) acetyltransferase activity 0.01918 Highly Informative Inherited
Cellular Component (CC) protein complex 2.319e-09 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 1 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.007837 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0 Informative Direct
Cellular Component (CC) chromosome 0.2151 Informative Inherited
Cellular Component (CC) transcription factor complex 0 Highly Informative Direct
Cellular Component (CC) chromatin 0.004851 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 1 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 groups other than amino-acyl groups0Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.04645Least InformativeInherited
Disease Ontology (DO)nervous system cancer0.002752Moderately InformativeInherited
Disease Ontology (DO)disease of mental health0.3378Moderately InformativeInherited
Disease Ontology (DO)peripheral nervous system neoplasm1.217e-06InformativeDirect
Disease Ontology (DO)developmental disorder of mental health0.2385InformativeInherited
Disease Ontology (DO)autonomic nervous system neoplasm6.308e-07Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of head and neck0.3343Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.7887Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skull0.243Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the calvaria0.09974InformativeInherited
Phenotypic Abnormality (PA)Abnormality of calvarial morphology0.03176Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging3.878e-05Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.00016Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.0303Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.2722Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.8006Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.004706Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.008974Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.009009Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.009045Moderately InformativeInherited
Mammalian Phenotype (MP)muscle phenotype0.01994Moderately InformativeInherited
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.02876Moderately InformativeInherited
Mammalian Phenotype (MP)digestive/alimentary phenotype0.06835Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.06883Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.0951Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.1341Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.1929Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.3032Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.6002Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.8804Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell differentiation0.0001803InformativeDirect
Mammalian Phenotype (MP)abnormal neuron number0.004228InformativeInherited
Mammalian Phenotype (MP)abnormal gas homeostasis0.01163InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.08717InformativeInherited
Mammalian Phenotype (MP)abnormal heart septum morphology0.118InformativeInherited
Mammalian Phenotype (MP)abnormal heart ventricle morphology0.1237InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle morphology0.1703InformativeInherited
Mammalian Phenotype (MP)abnormal respiratory function0.1969InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.2904InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.3437InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.693InformativeInherited
Mammalian Phenotype (MP)increased sensory neuron number5.905e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal pancreatic acinus morphology9.869e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal amacrine cell morphology0.0001118Highly InformativeDirect
Mammalian Phenotype (MP)no abnormal phenotype detected0.0001157Highly InformativeDirect
Mammalian Phenotype (MP)abnormal retinal apoptosis0.0001524Highly InformativeDirect
Mammalian Phenotype (MP)thin retinal inner nuclear layer0.0001803Highly InformativeDirect
Mammalian Phenotype (MP)abnormal retinal bipolar cell morphology0.0002207Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cardiac epithelial to mesenchymal transition0.0003332Highly InformativeDirect
Mammalian Phenotype (MP)abnormal breathing pattern0.0004736Highly InformativeDirect
Mammalian Phenotype (MP)cyanosis0.0006783Highly InformativeDirect
Mammalian Phenotype (MP)abnormal telencephalon development0.001319Highly InformativeInherited
Mammalian Phenotype (MP)abnormal CNS glial cell morphology0.006152Highly InformativeInherited
Mammalian Phenotype (MP)abnormal brain ventricle morphology0.01246Highly InformativeInherited
Mammalian Phenotype (MP)abnormal clavicle morphology0.01246Highly InformativeInherited
Mammalian Phenotype (MP)abnormal catecholamine level0.2133Highly InformativeInherited
Mammalian Phenotype (MP)abnormal muscle fiber morphology0.4729Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary gland morphology0.6153Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.001148Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.0136Least InformativeInherited
Worm Phenotype (WP)organ system development variant0.000182Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.7759Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.838Moderately InformativeInherited
Worm Phenotype (WP)chemotaxis variant0.0009877InformativeDirect
Worm Phenotype (WP)neuron development variant0.01121InformativeInherited
Worm Phenotype (WP)ectopic expression transgene1.757e-05Highly InformativeDirect
Worm Phenotype (WP)nervous system physiology variant0.0001566Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.0004878Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)visible0.000349Moderately InformativeDirect
Fly Phenotype (FP)circadian rhythm defective0.0006325InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system subdivision0.01938Least InformativeInherited
Fly Anatomy (FA)organ system0.02177Least InformativeInherited
Fly Anatomy (FA)anatomical group0.0718Least InformativeInherited
Fly Anatomy (FA)cell0.2091Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)cell cluster organ0.0262Moderately InformativeInherited
Fly Anatomy (FA)sense organ0.05409Moderately InformativeInherited
Fly Anatomy (FA)portion of tissue0.1432Moderately InformativeInherited
Fly Anatomy (FA)adult integumentary system0.1827Moderately InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.2525Moderately InformativeInherited
Fly Anatomy (FA)adult thorax0.2554Moderately InformativeInherited
Fly Anatomy (FA)appendage0.463Moderately InformativeInherited
Fly Anatomy (FA)thoracic segment0.5057Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.5993Moderately InformativeInherited
Fly Anatomy (FA)head0.8401Moderately InformativeInherited
Fly Anatomy (FA)tagmatic subdivision of integument0.9396Moderately InformativeInherited
Fly Anatomy (FA)chaeta0.001921InformativeInherited
Fly Anatomy (FA)mechanosensory system0.02312InformativeInherited
Fly Anatomy (FA)adult external head0.064InformativeInherited
Fly Anatomy (FA)antennal segment0.1261InformativeInherited
Fly Anatomy (FA)leg0.153InformativeInherited
Fly Anatomy (FA)appendage segment0.2024InformativeInherited
Fly Anatomy (FA)adult procephalic segment0.5134InformativeInherited
Fly Anatomy (FA)sensory mother cell9.918e-06Highly InformativeDirect
Fly Anatomy (FA)mesothoracic leg0.00422Highly InformativeInherited
Fly Anatomy (FA)head bristle0.02845Highly InformativeInherited
Fly Anatomy (FA)macrochaeta0.1381Highly InformativeInherited
Fly Anatomy (FA)segment of leg0.3748Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)portion of tissue0.1025Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.5727Least InformativeInherited
Zebrafish Anatomy (ZA)musculature system0.009122Moderately InformativeInherited
Zebrafish Anatomy (ZA)electrically responsive cell1Moderately InformativeInherited
Zebrafish Anatomy (ZA)smooth muscle cell0.0001479InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.03514Least InformativeInherited
Xenopus ANatomical entity (XAN)portion of tissue0.03945Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.7631Least InformativeInherited
Xenopus ANatomical entity (XAN)cell0.9884Least InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system1Least InformativeInherited
Xenopus ANatomical entity (XAN)central nervous system1Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure1.324e-08Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.0001261Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.1112Moderately InformativeInherited
Xenopus ANatomical entity (XAN)surface structure0.3333Moderately InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.5008Moderately InformativeInherited
Xenopus ANatomical entity (XAN)visual system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical direction0InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm1.333e-13InformativeDirect
Xenopus ANatomical entity (XAN)neural plate2.967e-11InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord3.139e-08InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain1.03e-07InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system2.528e-07InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region3.121e-07InformativeDirect
Xenopus ANatomical entity (XAN)forebrain1.321e-06InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space2.761e-06InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode4.985e-06InformativeDirect
Xenopus ANatomical entity (XAN)hematological system0.01236InformativeInherited
Xenopus ANatomical entity (XAN)tail0.7027InformativeInherited
Xenopus ANatomical entity (XAN)kidney0.8303InformativeInherited
Xenopus ANatomical entity (XAN)skeletal system0.9051InformativeInherited
Xenopus ANatomical entity (XAN)skin1InformativeInherited
Xenopus ANatomical entity (XAN)skeletal muscle1InformativeInherited
Xenopus ANatomical entity (XAN)neuron6.414e-10Highly InformativeDirect
Xenopus ANatomical entity (XAN)retina3.575e-09Highly InformativeDirect
Xenopus ANatomical entity (XAN)proliferative region1.012e-08Highly InformativeDirect
Xenopus ANatomical entity (XAN)mesenchyme3.064e-08Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border1.026e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)epithelium1.169e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)chordoneural hinge9.333e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)sensorial layer of neurectoderm1.172e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)olfactory system1.451e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)myotome1.677e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural tube1.781e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)otic vesicle2.255e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system3.323e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic vesicle9.488e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain9.739e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted ventral mesoderm0.0003807Highly InformativeDirect
Xenopus ANatomical entity (XAN)foregut0.0004134Highly InformativeDirect
Xenopus ANatomical entity (XAN)telencephalon0.0004518Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural fold0.0005057Highly InformativeDirect
Xenopus ANatomical entity (XAN)fused heart primordium0.0005205Highly InformativeDirect
Xenopus ANatomical entity (XAN)lateral line system0.0005764Highly InformativeDirect
Xenopus ANatomical entity (XAN)lens0.0006155Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain-hindbrain boundary0.0006328Highly InformativeDirect
Xenopus ANatomical entity (XAN)intersomitic region0.0009969Highly InformativeDirect
Xenopus ANatomical entity (XAN)trunk musculature0.001887Highly InformativeInherited
Xenopus ANatomical entity (XAN)limb bud0.002159Highly InformativeInherited
Xenopus ANatomical entity (XAN)marginal zone1Highly InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.0002605Least InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage0.0007193Least 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)megasporophyll1Least InformativeInherited
Plant ANatomical entity (PAN)flower1Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure1Least InformativeInherited
Plant ANatomical entity (PAN)root system1Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure1Least InformativeInherited
Plant ANatomical entity (PAN)root epidermis3.533e-05InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.003108InformativeInherited
Plant ANatomical entity (PAN)primary root0.0003535Highly InformativeDirect
Plant ANatomical entity (PAN)style0.001014Highly InformativeInherited

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0Highly InformativeDirect

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 processLipid metabolism1Moderately InformativeInherited
Biological processNeurogenesis0InformativeDirect
Biological processSteroid metabolism2.141e-10InformativeDirect
Biological processBiological rhythms0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processCholesterol metabolism2.73e-12Highly InformativeDirect
Biological processAdaptive immunity6.006e-05Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityChromosomal rearrangement8.081e-06InformativeDirect
DiseaseProto-oncogene0Moderately InformativeDirect
DomainRepeat2.448e-05Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation1.859e-07Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond2.087e-06Moderately InformativeDirect
Post-translational modificationHydroxylation3.77e-11InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011598 SSF47459 Protein matches
Abstract

The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways [PubMed10710415]. bHLH proteins include MyoD [PubMed12783965], SREBPs (sterol regulatory element binding proteins) [PubMed9634703], and yeast Pho4 (phosphatase system) [PubMed9303313].

In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding [PubMed10378692]. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [PubMed12553908, PubMed8306960].

This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 10 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 HLH, helix-loop-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 10 hidden Markov models representing the HLH, helix-loop-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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]