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 (405) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 20,797 19,096 13
Proteins 20,758 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)multicellular organismal process1.195e-140Least InformativeDirect
Biological Process (BP)developmental process00Least InformativeDirect
Biological Process (BP)regulation of cellular process8.245e-110Least InformativeDirect
Biological Process (BP)response to stimulus7.403e-051.896e-14Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.0022140Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0018364.262e-12Least InformativeInherited
Biological Process (BP)regulation of biosynthetic process1.598e-150Moderately InformativeDirect
Biological Process (BP)regulation of cellular metabolic process0.00020340Moderately InformativeDirect
Biological Process (BP)single-organism developmental process4.265e-050Moderately InformativeDirect
Biological Process (BP)regulation of developmental process5.916e-092.276e-10Moderately InformativeDirect
Biological Process (BP)regulation of nitrogen compound metabolic process3.099e-150Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.024210.9405Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.017860.02306Moderately InformativeInherited
Biological Process (BP)tissue development0.13461.512e-07Moderately InformativeInherited
Biological Process (BP)organ development0.11787.909e-12Moderately InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.15430.9952Moderately InformativeInherited
Biological Process (BP)system process0.4531Moderately InformativeInherited
Biological Process (BP)regulation of multicellular organismal process2.123e-060.001481Moderately InformativeInherited
Biological Process (BP)cell differentiation0.35957.116e-05Moderately InformativeInherited
Biological Process (BP)nervous system development5.249e-050.4002Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.26292.364e-12Moderately InformativeInherited
Biological Process (BP)organ morphogenesis7.2e-056.854e-06InformativeDirect
Biological Process (BP)embryonic organ development3.591e-055.624e-13InformativeDirect
Biological Process (BP)embryonic morphogenesis8.356e-074.889e-06InformativeDirect
Biological Process (BP)generation of neurons07.464e-07InformativeDirect
Biological Process (BP)negative regulation of developmental process3.085e-065.246e-11InformativeDirect
Biological Process (BP)regulation of nervous system development0.00033940.0003227InformativeDirect
Biological Process (BP)regulation of cell proliferation0.0023110.3411InformativeInherited
Biological Process (BP)regulation of cell cycle process0.10031InformativeInherited
Biological Process (BP)gland development0.0029171.911e-05InformativeInherited
Biological Process (BP)epithelium development0.29670.06249InformativeInherited
Biological Process (BP)blood circulation10.1443InformativeInherited
Biological Process (BP)regulation of cell development0.12020.0001518InformativeInherited
Biological Process (BP)response to light stimulus6.46e-051InformativeInherited
Biological Process (BP)cell fate commitment2.504e-050Highly InformativeDirect
Biological Process (BP)regulation of cell cycle arrest1.994e-066.85e-12Highly InformativeDirect
Biological Process (BP)negative regulation of cell proliferation0.00078651Highly InformativeInherited
Biological Process (BP)regulation of neural precursor cell proliferation7.057e-090.002669Highly InformativeInherited
Biological Process (BP)mammary gland alveolus development9.08e-070.001719Highly InformativeInherited
Biological Process (BP)mammary gland epithelium development8.658e-060.05148Highly InformativeInherited
Biological Process (BP)embryonic organ morphogenesis0.00094810.02182Highly InformativeInherited
Biological Process (BP)regulation of blood pressure6.848e-100.103Highly InformativeInherited
Biological Process (BP)regulation of neuron differentiation0.16480.7528Highly InformativeInherited
Biological Process (BP)aging0.00046481Highly InformativeInherited
Molecular Function (MF)binding0.0048410Least InformativeInherited
Molecular Function (MF)protein binding0.0035390.2774Moderately InformativeInherited
Molecular Function (MF)organic cyclic compound binding0.42510Moderately InformativeInherited
Molecular Function (MF)heterocyclic compound binding0.38240Moderately InformativeInherited
Molecular Function (MF)nucleic acid binding transcription factor activity5.636e-110InformativeDirect
Molecular Function (MF)DNA binding0.00054270InformativeDirect
Molecular Function (MF)protein dimerization activity0.10560InformativeInherited
Molecular Function (MF)transcription factor binding2.415e-070Highly InformativeDirect
Molecular Function (MF)protein heterodimerization activity7.731e-060Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.089910Least 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) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 4.262e-12 Least Informative Direct
Biological Process (BP) regulation of cellular process 0 Least Informative Direct
Biological Process (BP) response to stimulus 1.896e-14 Least Informative Direct
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.01117 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.05398 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1549 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.9094 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.04431 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.8253 Least Informative Inherited
Biological Process (BP) reproduction 0.0004434 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 2.364e-12 Moderately Informative Direct
Biological Process (BP) tissue development 1.512e-07 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 5.644e-11 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 4.877e-12 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cell differentiation 7.116e-05 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 1.04e-12 Moderately Informative Direct
Biological Process (BP) homeostatic process 6.418e-05 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) organ development 7.909e-12 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 2.276e-10 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9405 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.02306 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.1756 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9952 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.4002 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.2201 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.001481 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 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) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.04644 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-dependent 0 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 3.186e-06 Informative Direct
Biological Process (BP) nucleocytoplasmic transport 8.765e-05 Informative Direct
Biological Process (BP) sensory organ development 1.135e-06 Informative Direct
Biological Process (BP) organ morphogenesis 6.854e-06 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 2.076e-15 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 6.27e-12 Informative Direct
Biological Process (BP) response to lipid 9.944e-05 Informative Direct
Biological Process (BP) tube development 0.0004088 Informative Direct
Biological Process (BP) chordate embryonic development 4.136e-05 Informative Direct
Biological Process (BP) embryonic organ development 5.624e-13 Informative Direct
Biological Process (BP) embryonic morphogenesis 4.889e-06 Informative Direct
Biological Process (BP) generation of neurons 7.464e-07 Informative Direct
Biological Process (BP) tissue morphogenesis 9.484e-05 Informative Direct
Biological Process (BP) gland development 1.911e-05 Informative Direct
Biological Process (BP) negative regulation of developmental process 5.246e-11 Informative Direct
Biological Process (BP) positive regulation of developmental process 4.868e-05 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) chromosome organization 0.0003107 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0003227 Informative Direct
Biological Process (BP) regulation of cell development 0.0001518 Informative Direct
Biological Process (BP) muscle structure development 1.41e-05 Informative Direct
Biological Process (BP) regulation of response to stress 0.07385 Informative Inherited
Biological Process (BP) regulation of cell proliferation 0.3411 Informative Inherited
Biological Process (BP) response to light stimulus 1 Informative Inherited
Biological Process (BP) regulation of cell cycle process 1 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.4897 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.3525 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.6688 Informative Inherited
Biological Process (BP) cardiovascular system development 0.1636 Informative Inherited
Biological Process (BP) cellular component movement 1 Informative Inherited
Biological Process (BP) locomotion 0.9288 Informative Inherited
Biological Process (BP) localization of cell 0.4187 Informative Inherited
Biological Process (BP) reproductive system development 0.596 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.9506 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.004493 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.4535 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.01031 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) blood circulation 0.1443 Informative Inherited
Biological Process (BP) single-organism behavior 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) response to oxidative stress 1 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) regulation of apoptotic process 1 Informative Inherited
Biological Process (BP) epithelium development 0.06249 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) positive regulation of phosphorus metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.6533 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.8151 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.313 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.02282 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.02081 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 1 Informative Inherited
Biological Process (BP) central nervous system development 0.01598 Informative Inherited
Biological Process (BP) cell activation 0.6967 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.9519 Informative Inherited
Biological Process (BP) muscle tissue development 0.06068 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.7389 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) pigment metabolic process 0.2278 Informative Inherited
Biological Process (BP) cellular ketone metabolic process 0.1826 Informative Inherited
Biological Process (BP) response to external stimulus 1 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) secretion 0.8567 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 cation homeostasis 0.04964 Informative Inherited
Biological Process (BP) metal ion homeostasis 0.128 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) cellular component disassembly 0.4566 Informative Inherited
Biological Process (BP) apoptotic process 0.03158 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 1 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.06517 Informative Inherited
Biological Process (BP) mitochondrion organization 0.1591 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.8776 Informative Inherited
Biological Process (BP) MAPK cascade 0.0002713 Highly Informative Direct
Biological Process (BP) response to hypoxia 0 Highly Informative Direct
Biological Process (BP) embryonic placenta development 1.446e-07 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 0.000127 Highly Informative Direct
Biological Process (BP) xenobiotic metabolic process 3.196e-05 Highly Informative Direct
Biological Process (BP) cellular iron ion homeostasis 1.119e-13 Highly Informative Direct
Biological Process (BP) cellular component disassembly involved in execution phase of apoptosis 0.0001894 Highly Informative Direct
Biological Process (BP) muscle organ development 0.0004556 Highly Informative Direct
Biological Process (BP) lactation 0.000107 Highly Informative Direct
Biological Process (BP) negative regulation of signal transduction 2.066e-05 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 4.315e-06 Highly Informative Direct
Biological Process (BP) positive regulation of peptidase activity 0 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0001505 Highly Informative Direct
Biological Process (BP) lung development 0.0002431 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0.0001281 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 2.22e-07 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 5.837e-06 Highly Informative Direct
Biological Process (BP) regulation of myeloid cell differentiation 7.835e-15 Highly Informative Direct
Biological Process (BP) stem cell development 1.21e-08 Highly Informative Direct
Biological Process (BP) positive regulation of epithelial cell proliferation 0.0001233 Highly Informative Direct
Biological Process (BP) regulation of binding 1.117e-07 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 4.148e-08 Highly Informative Direct
Biological Process (BP) regulation of cell cycle arrest 6.85e-12 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 8.982e-08 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 1 Highly Informative Inherited
Biological Process (BP) regulation of neural precursor cell proliferation 0.002669 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.5634 Highly Informative Inherited
Biological Process (BP) cellular response to abiotic stimulus 0.03817 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.3418 Highly Informative Inherited
Biological Process (BP) kidney development 0.5584 Highly Informative Inherited
Biological Process (BP) cardiocyte differentiation 0.1702 Highly Informative Inherited
Biological Process (BP) mammary gland alveolus development 0.001719 Highly Informative Inherited
Biological Process (BP) mammary gland epithelium development 0.05148 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.07838 Highly Informative Inherited
Biological Process (BP) lipid homeostasis 0.06103 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.02182 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.07806 Highly Informative Inherited
Biological Process (BP) regulation of blood pressure 0.103 Highly Informative Inherited
Biological Process (BP) regulation of neuron differentiation 0.7528 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.01766 Highly Informative Inherited
Biological Process (BP) multicellular organismal metabolic process 0.01552 Highly Informative Inherited
Biological Process (BP) histone modification 0.2614 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 1 Highly Informative Inherited
Biological Process (BP) inner ear development 0.4383 Highly Informative Inherited
Biological Process (BP) epidermis development 0.7816 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 1 Highly Informative Inherited
Biological Process (BP) regulation of peptidyl-tyrosine phosphorylation 0.06124 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 1 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.05185 Highly Informative Inherited
Biological Process (BP) retina development in camera-type eye 0.03477 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.06066 Highly Informative Inherited
Biological Process (BP) T cell activation 1 Highly Informative Inherited
Biological Process (BP) multi-multicellular organism process 1 Highly Informative Inherited
Biological Process (BP) endocrine system development 0.06794 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to growth factor stimulus 1 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.00193 Highly Informative Inherited
Biological Process (BP) development of primary female sexual characteristics 1 Highly Informative Inherited
Biological Process (BP) extracellular matrix organization 0.1112 Highly Informative Inherited
Biological Process (BP) glial cell differentiation 0.06707 Highly Informative Inherited
Biological Process (BP) peptidyl-lysine modification 0.002891 Highly Informative Inherited
Biological Process (BP) negative regulation of cell development 0.2957 Highly Informative Inherited
Biological Process (BP) phenylpropanoid metabolic process 0.003588 Highly Informative Inherited
Biological Process (BP) secondary metabolite biosynthetic process 0.1826 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.1458 Highly Informative Inherited
Biological Process (BP) gonad development 0.0175 Highly Informative Inherited
Biological Process (BP) microtubule-based movement 0.1343 Highly Informative Inherited
Biological Process (BP) aging 1 Highly Informative Inherited
Biological Process (BP) DNA catabolic process 0.001349 Highly Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.319 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.7045 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.001162 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.03497 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.1354 Highly Informative Inherited
Biological Process (BP) ossification 0.07057 Highly Informative Inherited
Biological Process (BP) apoptotic signaling pathway 0.6962 Highly Informative Inherited
Biological Process (BP) lymphocyte differentiation 0.07666 Highly Informative Inherited
Biological Process (BP) gastrulation 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) organic cyclic compound binding 0 Moderately Informative Direct
Molecular Function (MF) heterocyclic compound binding 0 Moderately Informative Direct
Molecular Function (MF) protein binding 0.2774 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) protein dimerization activity 0 Informative Direct
Molecular Function (MF) enzyme binding 0.387 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) chromatin binding 1.858e-10 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0 Highly Informative Direct
Molecular Function (MF) protein complex binding 1.424e-06 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.8631 Highly Informative Inherited
Molecular Function (MF) structure-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0.1592 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) protein complex 1.119e-13 Least Informative Direct
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) nuclear part 0.1221 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0 Informative Direct
Cellular Component (CC) chromosome 0.5169 Informative Inherited
Cellular Component (CC) transcription factor complex 0 Highly Informative Direct
Cellular Component (CC) chromatin 0.005371 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 cancer0.06298Least InformativeInherited
Disease Ontology (DO)nervous system cancer0.004829Moderately InformativeInherited
Disease Ontology (DO)peripheral nervous system neoplasm6.209e-06InformativeDirect
Disease Ontology (DO)developmental disorder of mental health0.246InformativeInherited

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 neck0.396Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.8154Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skull0.3096Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the ear0.1289InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the calvaria0.1453InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the outer ear0.01112Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of calvarial morphology0.06573Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.0001879Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.0004909Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.04479Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.3039Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7072Least InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.005208Moderately InformativeInherited
Mammalian Phenotype (MP)embryogenesis phenotype0.005782Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell differentiation0.006276Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.009927Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.0141Moderately InformativeInherited
Mammalian Phenotype (MP)muscle phenotype0.02409Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.0542Moderately InformativeInherited
Mammalian Phenotype (MP)digestive/alimentary phenotype0.08536Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.117Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.1216Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.1331Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.1526Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.3548Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.8478Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron differentiation0.0003847InformativeDirect
Mammalian Phenotype (MP)abnormal neuron number0.002446InformativeInherited
Mammalian Phenotype (MP)abnormal embryonic tissue morphology0.0678InformativeInherited
Mammalian Phenotype (MP)abnormal respiration0.08581InformativeInherited
Mammalian Phenotype (MP)abnormal coat appearance0.09146InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial development0.1206InformativeInherited
Mammalian Phenotype (MP)abnormal brain development0.1276InformativeInherited
Mammalian Phenotype (MP)abnormal cell proliferation0.1329InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle morphology0.1429InformativeInherited
Mammalian Phenotype (MP)abnormal circulating hormone level0.2032InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.397InformativeInherited
Mammalian Phenotype (MP)increased sensory neuron number1.261e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal amacrine cell morphology7.35e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal pancreatic acinus morphology0.0001069Highly InformativeDirect
Mammalian Phenotype (MP)abnormal retinal apoptosis0.0001881Highly InformativeDirect
Mammalian Phenotype (MP)abnormal retinal bipolar cell morphology0.0002656Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cardiac epithelial to mesenchymal transition0.0003619Highly InformativeDirect
Mammalian Phenotype (MP)abnormal breathing pattern0.0004669Highly InformativeDirect
Mammalian Phenotype (MP)abnormal telencephalon development0.004308Highly InformativeInherited
Mammalian Phenotype (MP)abnormal CNS glial cell morphology0.007943Highly InformativeInherited
Mammalian Phenotype (MP)abnormal coat/hair pigmentation0.13Highly InformativeInherited
Mammalian Phenotype (MP)abnormal brain ventricle/choroid plexus morphology0.227Highly InformativeInherited
Mammalian Phenotype (MP)abnormal catecholamine level0.2292Highly InformativeInherited
Mammalian Phenotype (MP)abnormal branchial arch morphology0.3462Highly InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle fiber morphology0.4348Highly InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary gland morphology0.5807Highly 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) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)lethal0.0004171Least InformativeDirect
Fly Phenotype (FP)visible0.0004826Moderately InformativeDirect
Fly Phenotype (FP)behavior defective0.00765Moderately InformativeInherited
Fly Phenotype (FP)circadian rhythm defective0.0003442InformativeDirect
Fly Phenotype (FP)locomotor behavior defective0.3575InformativeInherited
Fly Phenotype (FP)locomotor rhythm defective0.000731Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system subdivision0.05058Least InformativeInherited
Fly Anatomy (FA)organ system0.05471Least InformativeInherited
Fly Anatomy (FA)cell0.321Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)cell cluster organ0.02425Moderately InformativeInherited
Fly Anatomy (FA)sense organ0.04885Moderately InformativeInherited
Fly Anatomy (FA)portion of tissue0.1196Moderately InformativeInherited
Fly Anatomy (FA)adult integumentary system0.1382Moderately InformativeInherited
Fly Anatomy (FA)adult thorax0.1998Moderately InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.2291Moderately InformativeInherited
Fly Anatomy (FA)thoracic segment0.2844Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.3076Moderately InformativeInherited
Fly Anatomy (FA)appendage0.3382Moderately InformativeInherited
Fly Anatomy (FA)head0.8235Moderately InformativeInherited
Fly Anatomy (FA)tagmatic subdivision of integument0.9349Moderately InformativeInherited
Fly Anatomy (FA)chaeta0.001668InformativeInherited
Fly Anatomy (FA)mechanosensory sensory organ0.01945InformativeInherited
Fly Anatomy (FA)adult external head0.06149InformativeInherited
Fly Anatomy (FA)antennal segment0.1072InformativeInherited
Fly Anatomy (FA)leg0.1573InformativeInherited
Fly Anatomy (FA)appendage segment0.1743InformativeInherited
Fly Anatomy (FA)adult procephalic segment0.3926InformativeInherited
Fly Anatomy (FA)sensory mother cell7.61e-05Highly InformativeDirect
Fly Anatomy (FA)mesothoracic leg0.004742Highly InformativeInherited
Fly Anatomy (FA)head bristle0.02793Highly InformativeInherited
Fly Anatomy (FA)mechanosensory chaeta0.06918Highly InformativeInherited
Fly Anatomy (FA)segment of leg0.4061Highly InformativeInherited

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.05372Least InformativeInherited
Xenopus ANatomical entity (XAN)portion of tissue0.07351Least InformativeInherited
Xenopus ANatomical entity (XAN)central nervous system0.39Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.7571Least InformativeInherited
Xenopus ANatomical entity (XAN)cell0.9778Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure1.609e-08Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.0005571Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0.2651Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.3568Moderately InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.5915Moderately InformativeInherited
Xenopus ANatomical entity (XAN)surface structure0.7184Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical direction0InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm7.924e-14InformativeDirect
Xenopus ANatomical entity (XAN)neural plate7.188e-12InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord4.267e-09InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region3.379e-07InformativeDirect
Xenopus ANatomical entity (XAN)otic vesicle0.000123InformativeDirect
Xenopus ANatomical entity (XAN)primordium0.0008031InformativeDirect
Xenopus ANatomical entity (XAN)skeletal system0.8932InformativeInherited
Xenopus ANatomical entity (XAN)kidney0.9047InformativeInherited
Xenopus ANatomical entity (XAN)tail0.9477InformativeInherited
Xenopus ANatomical entity (XAN)skin1InformativeInherited
Xenopus ANatomical entity (XAN)skeletal muscle1InformativeInherited
Xenopus ANatomical entity (XAN)neuron4.687e-11Highly InformativeDirect
Xenopus ANatomical entity (XAN)chordal neural plate1.113e-09Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural plate border2.157e-09Highly InformativeDirect
Xenopus ANatomical entity (XAN)mesenchyme8.228e-09Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain7.492e-08Highly InformativeDirect
Xenopus ANatomical entity (XAN)retina1.718e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal arch2.508e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)olfactory system4.02e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)eye primordium4.118e-07Highly InformativeDirect
Xenopus ANatomical entity (XAN)sensorial layer of neurectoderm1.057e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode1.057e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)epithelium2.569e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)forebrain6.218e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural tube7.435e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system1.053e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain1.909e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)tail bud2.038e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic vesicle4.306e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranium4.573e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior neural fold4.914e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)lens0.0002218Highly InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space0.0003466Highly InformativeDirect
Xenopus ANatomical entity (XAN)intermediate mesoderm0.0003754Highly InformativeDirect
Xenopus ANatomical entity (XAN)intersomitic region0.000379Highly InformativeDirect
Xenopus ANatomical entity (XAN)fused heart primordium0.0004668Highly InformativeDirect
Xenopus ANatomical entity (XAN)trunk musculature0.001411Highly InformativeInherited
Xenopus ANatomical entity (XAN)limb bud0.001537Highly InformativeInherited
Xenopus ANatomical entity (XAN)circulatory system0.01091Highly InformativeInherited
Xenopus ANatomical entity (XAN)fin0.05076Highly InformativeInherited
Xenopus ANatomical entity (XAN)marginal zone1Highly InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.0002593Least 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)plant cell1Least InformativeInherited
Plant ANatomical entity (PAN)root1Least InformativeInherited
Plant ANatomical entity (PAN)megasporophyll1Least InformativeInherited
Plant ANatomical entity (PAN)gynoecium1Least InformativeInherited
Plant ANatomical entity (PAN)root epidermal cell0.0001959InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.001774InformativeInherited
Plant ANatomical entity (PAN)primary root0.0002Highly InformativeDirect
Plant ANatomical entity (PAN)style0.0007013Highly InformativeDirect
Plant ANatomical entity (PAN)root differentiation zone0.0008671Highly InformativeDirect

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 metabolism2.055e-10InformativeDirect
Biological processBiological rhythms0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processAdaptive immunity5.689e-05Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityChromosomal rearrangement6.652e-06InformativeDirect
DiseaseProto-oncogene0Moderately InformativeDirect
DomainRepeat1.464e-05Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond6.375e-07Moderately InformativeDirect
Post-translational modificationAcetylation5.358e-06Moderately InformativeDirect
Post-translational modificationHydroxylation1.456e-11InformativeDirect
Post-translational modificationS-nitrosylation4.44e-06InformativeDirect

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) · 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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]