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 (703) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 2,156 5,110 9
Proteins 2,038 4,827 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 8.092e-08 Least Informative Direct
Biological Process (BP) developmental process 4.496e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 2.29e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.3185 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1111 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.676 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.09233 Least Informative Inherited
Biological Process (BP) response to stimulus 0.3994 Least Informative Inherited
Biological Process (BP) localization 0.8898 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.7548 Least Informative Inherited
Biological Process (BP) reproduction 0.0003719 Moderately Informative Direct
Biological Process (BP) regulation of cell communication 0.0006858 Moderately Informative Direct
Biological Process (BP) regulation of signaling 0.0006601 Moderately Informative Direct
Biological Process (BP) cell differentiation 1.778e-11 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 4.047e-06 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 8.825e-05 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0001435 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.009707 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.01885 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.1075 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.2642 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.005723 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.0139 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.06986 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.01918 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.004133 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.142 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.01847 Moderately Informative Inherited
Biological Process (BP) tissue development 0.1428 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.00512 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9619 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.0335 Moderately Informative Inherited
Biological Process (BP) central nervous system development 0.0005842 Informative Direct
Biological Process (BP) steroid metabolic process 9.08e-06 Informative Direct
Biological Process (BP) cell proliferation 0.0003937 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002926 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.000632 Informative Direct
Biological Process (BP) regulation of hormone levels 0.0002966 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0005052 Informative Direct
Biological Process (BP) response to lipid 0.0008646 Informative Direct
Biological Process (BP) growth 0.0001588 Informative Direct
Biological Process (BP) regulation of locomotion 0.0003059 Informative Direct
Biological Process (BP) regulation of cell proliferation 7.146e-08 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0005406 Informative Direct
Biological Process (BP) chordate embryonic development 2.504e-06 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.0005228 Informative Direct
Biological Process (BP) cellular process involved in reproduction 8.739e-05 Informative Direct
Biological Process (BP) generation of neurons 5.545e-05 Informative Direct
Biological Process (BP) negative regulation of developmental process 1.035e-05 Informative Direct
Biological Process (BP) positive regulation of developmental process 7.624e-07 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.0003668 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.0001963 Informative Direct
Biological Process (BP) localization of cell 0.0004915 Informative Direct
Biological Process (BP) reproductive system development 0.0009822 Informative Direct
Biological Process (BP) cardiovascular system development 3.665e-07 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.4227 Informative Inherited
Biological Process (BP) regulation of protein localization 0.001153 Informative Inherited
Biological Process (BP) muscle structure development 0.04093 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.1909 Informative Inherited
Biological Process (BP) embryonic organ development 0.002082 Informative Inherited
Biological Process (BP) organ morphogenesis 0.0158 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.0127 Informative Inherited
Biological Process (BP) regulation of cell development 0.4341 Informative Inherited
Biological Process (BP) response to external stimulus 0.01184 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.001669 Informative Inherited
Biological Process (BP) gland development 0.006039 Informative Inherited
Biological Process (BP) tube development 0.001389 Informative Inherited
Biological Process (BP) cell projection organization 0.02295 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.5088 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.001998 Informative Inherited
Biological Process (BP) locomotion 0.005329 Informative Inherited
Biological Process (BP) cellular component movement 0.0607 Informative Inherited
Biological Process (BP) epithelium development 0.001084 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.09164 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.02529 Informative Inherited
Biological Process (BP) skeletal system development 8.602e-07 Highly Informative Direct
Biological Process (BP) ossification 1.483e-05 Highly Informative Direct
Biological Process (BP) angiogenesis 3.548e-05 Highly Informative Direct
Biological Process (BP) kidney development 0.0004955 Highly Informative Direct
Biological Process (BP) negative regulation of immune system process 1.9e-05 Highly Informative Direct
Biological Process (BP) heart morphogenesis 3.118e-05 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0003105 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) axonogenesis 1.053e-05 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0004272 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 6.872e-07 Highly Informative Direct
Biological Process (BP) lung development 0.0004388 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 4.73e-10 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 6.497e-06 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 1.365e-08 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.0005477 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 3.265e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 7.409e-07 Highly Informative Direct
Biological Process (BP) regulation of lymphocyte activation 3.799e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 8.451e-06 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 0.0001174 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.0002516 Highly Informative Direct
Biological Process (BP) regulation of stem cell proliferation 6.571e-06 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 8.496e-08 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 2.416e-07 Highly Informative Direct
Biological Process (BP) regulation of organ morphogenesis 0.0008579 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0.001288 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.03549 Highly Informative Inherited
Biological Process (BP) stem cell development 0.003292 Highly Informative Inherited
Biological Process (BP) epithelial tube morphogenesis 0.01476 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.01357 Highly Informative Inherited
Molecular Function (MF) binding 0.5949 Least Informative Inherited
Molecular Function (MF) cation binding 3.447e-05 Moderately Informative Direct
Molecular Function (MF) protein binding 0.3456 Moderately Informative Inherited
Molecular Function (MF) receptor binding 4.572e-06 Informative Direct
Molecular Function (MF) transition metal ion binding 3.61e-07 Informative Direct
Molecular Function (MF) calcium ion binding 4.732e-05 Highly Informative Direct
Cellular Component (CC) membrane 0.7314 Least Informative Inherited
Cellular Component (CC) extracellular region 2.276e-07 Moderately Informative Direct
Cellular Component (CC) cell surface 0.0006551 Informative Direct
Cellular Component (CC) extracellular matrix 5.464e-06 Informative Direct
Cellular Component (CC) membrane raft 9.397e-07 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 groups7.138e-08Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.006372Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides2.037e-11Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases2.294e-11Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.0007782Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)DNA helicase3.913e-14InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.0007305InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor1.016e-06Highly InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0.4909Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.9986Least InformativeInherited
Biological processDNA damage0.005542Moderately InformativeInherited
Biological processIon transport0.0091Moderately InformativeInherited
Biological processDNA replication0InformativeDirect
Biological processDNA recombination6.648e-06InformativeDirect
Biological processInitiation factor0.0003817InformativeDirect
Biological processSOS response8.757e-06Highly InformativeDirect
Biological processHydrogen ion transport0.0003685Highly InformativeDirect
Cellular componentMembrane4.683e-05Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell membrane1.233e-08Moderately InformativeDirect
Cellular componentPrimosome0Highly InformativeDirect
DomainSignal5.322e-06Least InformativeDirect
Molecular functionNucleotide-binding1.681e-08Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionHelicase2.894e-07InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0.821Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase1.557e-14Moderately InformativeDirect
Post-translational modificationProtease1.344e-07Moderately InformativeDirect
Post-translational modificationIsomerase0.005878Moderately InformativeInherited
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationEndonuclease0.0002917InformativeDirect
Post-translational modificationIntron homing0Highly InformativeDirect
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 replication1.496e-11Highly 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 ]