SUPERFAMILY 1.75 HMM library and genome assignments server


Hedgehog/intein (Hint) domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Hedgehog/intein (Hint) domain [ 51293]
Superfamily:   Hedgehog/intein (Hint) domain [ 51294] (2)
Families:   Hedgehog C-terminal (Hog) autoprocessing domain [ 51295]
  Intein (protein splicing domain) [ 51298] (4)


Superfamily statistics
Genomes (874) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,712 8,058 9
Proteins 2,560 7,640 9


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) multicellular organismal process 4.147e-08 Least Informative Direct
Biological Process (BP) developmental process 2.363e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0001565 Least Informative Direct
Biological Process (BP) protein metabolic process 0.1904 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2516 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.03517 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.2353 Least Informative Inherited
Biological Process (BP) response to stimulus 0.6841 Least Informative Inherited
Biological Process (BP) localization 0.9002 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.7413 Least Informative Inherited
Biological Process (BP) reproduction 0.0004071 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 1.542e-06 Moderately Informative Direct
Biological Process (BP) gene expression 0.0004346 Moderately Informative Direct
Biological Process (BP) cell differentiation 8.998e-13 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 2.473e-05 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0005085 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 0.0004007 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 1.371e-06 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 1.271e-05 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.02435 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.2806 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.003759 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.05981 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.03169 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.1014 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.002291 Moderately Informative Inherited
Biological Process (BP) organ development 0.9878 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.9582 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1154 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.005977 Moderately Informative Inherited
Biological Process (BP) tissue development 0.05437 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8792 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.01663 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.02 Moderately Informative Inherited
Biological Process (BP) apoptotic process 6.579e-05 Informative Direct
Biological Process (BP) positive regulation of cell proliferation 1.895e-05 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002457 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0004291 Informative Direct
Biological Process (BP) response to lipid 0.0009418 Informative Direct
Biological Process (BP) tube development 0.0008209 Informative Direct
Biological Process (BP) growth 0.0001495 Informative Direct
Biological Process (BP) regulation of locomotion 8.195e-05 Informative Direct
Biological Process (BP) embryonic organ development 7.9e-06 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.000113 Informative Direct
Biological Process (BP) cellular process involved in reproduction 6.963e-05 Informative Direct
Biological Process (BP) generation of neurons 6.059e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0001195 Informative Direct
Biological Process (BP) negative regulation of developmental process 8.564e-05 Informative Direct
Biological Process (BP) positive regulation of developmental process 1.557e-07 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.0003405 Informative Direct
Biological Process (BP) regulation of cellular component movement 5.215e-05 Informative Direct
Biological Process (BP) localization of cell 0.0004562 Informative Direct
Biological Process (BP) epithelium development 0.0003415 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0002043 Informative Direct
Biological Process (BP) cardiovascular system development 2.512e-06 Informative Direct
Biological Process (BP) cell projection organization 0.01932 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.0322 Informative Inherited
Biological Process (BP) muscle structure development 0.04433 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2497 Informative Inherited
Biological Process (BP) reproductive system development 0.00275 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.001987 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.006352 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.004705 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.006156 Informative Inherited
Biological Process (BP) sensory organ development 0.002383 Informative Inherited
Biological Process (BP) central nervous system development 0.001797 Informative Inherited
Biological Process (BP) gland development 0.005237 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.001298 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.49 Informative Inherited
Biological Process (BP) cellular component movement 0.05838 Informative Inherited
Biological Process (BP) locomotion 0.005718 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.01647 Informative Inherited
Biological Process (BP) skeletal system development 2.917e-07 Highly Informative Direct
Biological Process (BP) ossification 2.595e-05 Highly Informative Direct
Biological Process (BP) angiogenesis 3.467e-05 Highly Informative Direct
Biological Process (BP) negative regulation of immune system process 0.0001105 Highly Informative Direct
Biological Process (BP) heart morphogenesis 0.0003184 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0001269 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) protein processing 5.475e-11 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0005134 Highly Informative Direct
Biological Process (BP) neural tube development 0.0001539 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 9.297e-09 Highly Informative Direct
Biological Process (BP) respiratory tube development 0.0005595 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 7.079e-10 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 2.469e-07 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 2.324e-05 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 3.715e-05 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0005425 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 4.296e-07 Highly Informative Direct
Biological Process (BP) regulation of T cell activation 5.903e-09 Highly Informative Direct
Biological Process (BP) negative regulation of cell activation 3.904e-06 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 7.891e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 6.857e-07 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.537e-05 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.0001163 Highly Informative Direct
Biological Process (BP) respiratory system development 7.33e-05 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 9.822e-05 Highly Informative Direct
Biological Process (BP) axon development 8.692e-06 Highly Informative Direct
Biological Process (BP) renal system development 0.0001452 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.0002003 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 1.222e-07 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 3.33e-06 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 0.08019 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.001699 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.03127 Highly Informative Inherited
Biological Process (BP) stem cell development 0.003374 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.0522 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.0352 Highly Informative Inherited
Molecular Function (MF) binding 0.7068 Least Informative Inherited
Molecular Function (MF) cation binding 3.55e-06 Moderately Informative Direct
Molecular Function (MF) receptor binding 3.134e-06 Informative Direct
Molecular Function (MF) calcium ion binding 1.181e-05 Highly Informative Direct
Cellular Component (CC) membrane 0.3279 Least Informative Inherited
Cellular Component (CC) extracellular region part 0.0002688 Moderately Informative Direct
Cellular Component (CC) cell surface 0.0008652 Informative Direct
Cellular Component (CC) extracellular matrix 2.068e-06 Informative Direct
Cellular Component (CC) membrane raft 1.24e-06 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases1.853e-11Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides2.567e-11Least InformativeDirect
Enzyme Commission (EC)Isomerases0.0007016Least InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.003052Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembran0.5033InformativeInherited
Enzyme Commission (EC)H(+)-transporting two-sector ATPase3.949e-07Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0Least InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)digestive/alimentary phenotype0Moderately InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.002941Least InformativeInherited
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)pericellular component development variant8.407e-09Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant1.472e-08Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant1.403e-05Moderately InformativeDirect
Worm Phenotype (WP)body length variant3.673e-10InformativeDirect
Worm Phenotype (WP)body width variant5.843e-10InformativeDirect
Worm Phenotype (WP)molt variant0Highly InformativeDirect
Worm Phenotype (WP)small2.44e-13Highly InformativeDirect
Worm Phenotype (WP)male tail development variant3.481e-13Highly InformativeDirect
Worm Phenotype (WP)cell secretion variant3.131e-12Highly InformativeDirect
Worm Phenotype (WP)body vacuole6.465e-08Highly InformativeDirect
Worm Phenotype (WP)alimentary system morphology variant1.851e-07Highly InformativeDirect
Worm Phenotype (WP)alae morphology variant0.06398Highly InformativeInherited

Document: WP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups2.047e-07Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.002059Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides5.912e-13Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases3.775e-11Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.001Moderately InformativeInherited
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)DNA helicase0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups5.941e-05InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor1.668e-08Highly InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0.6219Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processDNA damage0.0005896Moderately InformativeDirect
Biological processIon transport0.00976Moderately InformativeInherited
Biological processDNA replication0InformativeDirect
Biological processDNA recombination9.005e-06InformativeDirect
Biological processIntron homing0Highly InformativeDirect
Biological processSOS response0.0001954Highly InformativeDirect
Biological processHydrogen ion transport0.0003655Highly InformativeDirect
Cellular componentMembrane6.42e-05Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell membrane4.527e-09Moderately InformativeDirect
Cellular componentPrimosome0Highly InformativeDirect
DomainSignal3.309e-05Least InformativeDirect
Molecular functionZinc1.526e-05Least InformativeDirect
Molecular functionNucleotide-binding3.737e-05Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionCalcium8.36e-09Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0.8261Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase2.751e-14Moderately InformativeDirect
Post-translational modificationProtease1.316e-07Moderately InformativeDirect
Post-translational modificationIsomerase0.005406Moderately InformativeInherited
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationEndonuclease0.0004747InformativeDirect
Post-translational modificationInitiation factor0.0006508InformativeDirect
Post-translational modificationTopoisomerase0Highly InformativeDirect
Post-translational modificationPalmitate0Moderately InformativeDirect
Post-translational modificationAutocatalytic cleavage0InformativeDirect
Post-translational modificationProtein splicing0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)DNA replication3.042e-14Highly InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 6 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 Hedgehog/intein (Hint) 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 6 hidden Markov models representing the Hedgehog/intein (Hint) domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]