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 (873) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,709 8,058 9
Proteins 2,557 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 8.875e-08 Least Informative Direct
Biological Process (BP) developmental process 5.203e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0002232 Least Informative Direct
Biological Process (BP) protein metabolic process 0.3259 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2488 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.03874 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1177 Least Informative Inherited
Biological Process (BP) response to stimulus 0.4813 Least Informative Inherited
Biological Process (BP) localization 0.9286 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.7818 Least Informative Inherited
Biological Process (BP) reproduction 0.0005129 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 1.824e-06 Moderately Informative Direct
Biological Process (BP) cell differentiation 1.069e-12 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 1.292e-06 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0005994 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 0.0004103 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 1.62e-06 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 1.453e-05 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.02472 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.004322 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.05932 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.03316 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.04252 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.002521 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.43 Moderately Informative Inherited
Biological Process (BP) organ development 0.9888 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.117 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.006063 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002422 Moderately Informative Inherited
Biological Process (BP) tissue development 0.0541 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.001052 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.876 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.0182 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.03685 Moderately Informative Inherited
Biological Process (BP) apoptotic process 7.166e-05 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002707 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.000471 Informative Direct
Biological Process (BP) tube development 0.0008036 Informative Direct
Biological Process (BP) growth 0.0002025 Informative Direct
Biological Process (BP) regulation of locomotion 8.097e-05 Informative Direct
Biological Process (BP) regulation of cell proliferation 7.303e-08 Informative Direct
Biological Process (BP) regulation of apoptotic process 1.268e-05 Informative Direct
Biological Process (BP) embryonic organ development 7.995e-06 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.0001088 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.0001272 Informative Direct
Biological Process (BP) generation of neurons 6.455e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0001297 Informative Direct
Biological Process (BP) negative regulation of developmental process 8.228e-05 Informative Direct
Biological Process (BP) positive regulation of developmental process 1.408e-07 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.0003807 Informative Direct
Biological Process (BP) regulation of cellular component movement 5.183e-05 Informative Direct
Biological Process (BP) localization of cell 0.0004891 Informative Direct
Biological Process (BP) epithelium development 0.0003426 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0002082 Informative Direct
Biological Process (BP) cardiovascular system development 2.552e-06 Informative Direct
Biological Process (BP) cell projection organization 0.02558 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.03162 Informative Inherited
Biological Process (BP) muscle structure development 0.04428 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2479 Informative Inherited
Biological Process (BP) reproductive system development 0.002782 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.001949 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.006514 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.004474 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.006056 Informative Inherited
Biological Process (BP) sensory organ development 0.002321 Informative Inherited
Biological Process (BP) central nervous system development 0.001868 Informative Inherited
Biological Process (BP) gland development 0.00511 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.001274 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.461 Informative Inherited
Biological Process (BP) cellular component movement 0.07564 Informative Inherited
Biological Process (BP) locomotion 0.006635 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.01647 Informative Inherited
Biological Process (BP) skeletal system development 2.824e-07 Highly Informative Direct
Biological Process (BP) ossification 2.565e-05 Highly Informative Direct
Biological Process (BP) angiogenesis 3.611e-05 Highly Informative Direct
Biological Process (BP) negative regulation of immune system process 0.0001135 Highly Informative Direct
Biological Process (BP) heart morphogenesis 0.0003178 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0002898 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) protein processing 6.081e-11 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0005074 Highly Informative Direct
Biological Process (BP) neural tube development 0.0001498 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 1.04e-08 Highly Informative Direct
Biological Process (BP) respiratory tube development 0.0005569 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 7.468e-10 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 2.624e-07 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 2.31e-05 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 3.501e-05 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0005574 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 4.029e-07 Highly Informative Direct
Biological Process (BP) regulation of T cell activation 6.246e-09 Highly Informative Direct
Biological Process (BP) negative regulation of cell activation 3.83e-06 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 7.897e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 7.208e-07 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.531e-05 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.0001186 Highly Informative Direct
Biological Process (BP) respiratory system development 7.056e-05 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 8.931e-05 Highly Informative Direct
Biological Process (BP) renal system development 0.0001456 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.0001881 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 1.301e-07 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 3.219e-06 Highly Informative Direct
Biological Process (BP) neuron projection development 0.1905 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 0.1368 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.001627 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.0311 Highly Informative Inherited
Biological Process (BP) stem cell development 0.003406 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.003714 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.03421 Highly Informative Inherited
Molecular Function (MF) binding 0.489 Least Informative Inherited
Molecular Function (MF) cation binding 5.977e-07 Moderately Informative Direct
Molecular Function (MF) receptor binding 3.489e-06 Informative Direct
Molecular Function (MF) calcium ion binding 6.812e-05 Highly Informative Direct
Cellular Component (CC) membrane 0.3582 Least Informative Inherited
Cellular Component (CC) extracellular region part 0.0002923 Moderately Informative Direct
Cellular Component (CC) cell surface 0.0008519 Informative Direct
Cellular Component (CC) extracellular matrix 2.274e-06 Informative Direct
Cellular Component (CC) membrane raft 1.294e-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 groups2.054e-07Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.002188Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides5.986e-13Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases3.704e-11Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.0009967Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)DNA helicase0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups5.927e-05InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor1.665e-08Highly InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0.6199Highly 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

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) ]

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) · Internal database links ]