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 (853) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 2,643 5,110 9
Proteins 2,491 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 1.614e-08 Least Informative Direct
Biological Process (BP) developmental process 9.57e-10 Least Informative Direct
Biological Process (BP) single-organism cellular process 3.709e-05 Least Informative Direct
Biological Process (BP) protein metabolic process 0.1266 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2769 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1095 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.3268 Least Informative Inherited
Biological Process (BP) response to stimulus 0.4116 Least Informative Inherited
Biological Process (BP) localization 0.8214 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.6242 Least Informative Inherited
Biological Process (BP) reproduction 0.0002129 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0003439 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.739e-12 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 8.461e-05 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 8.948e-07 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0007587 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 7.451e-05 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0001018 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.01578 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.01322 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.06055 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.004032 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.04473 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.009816 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.1195 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.007175 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.9532 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.04851 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.01717 Moderately Informative Inherited
Biological Process (BP) gene expression 0.001029 Moderately Informative Inherited
Biological Process (BP) tissue development 0.1482 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9361 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.007832 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.005912 Moderately Informative Inherited
Biological Process (BP) cell-cell signaling 2.407e-08 Informative Direct
Biological Process (BP) central nervous system development 0.0005473 Informative Direct
Biological Process (BP) steroid metabolic process 5.335e-06 Informative Direct
Biological Process (BP) positive regulation of cell proliferation 1.993e-06 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002154 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.0005938 Informative Direct
Biological Process (BP) regulation of hormone levels 0.0004635 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0003912 Informative Direct
Biological Process (BP) response to lipid 0.0006662 Informative Direct
Biological Process (BP) regulation of locomotion 0.000511 Informative Direct
Biological Process (BP) embryonic organ development 0.0001906 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.0003448 Informative Direct
Biological Process (BP) cellular process involved in reproduction 5.645e-05 Informative Direct
Biological Process (BP) generation of neurons 2.829e-05 Informative Direct
Biological Process (BP) negative regulation of developmental process 3.557e-05 Informative Direct
Biological Process (BP) positive regulation of developmental process 1.163e-06 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.0001916 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.0003428 Informative Direct
Biological Process (BP) localization of cell 0.0002861 Informative Direct
Biological Process (BP) negative regulation of cell death 8.682e-05 Informative Direct
Biological Process (BP) cardiovascular system development 3.662e-07 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.4626 Informative Inherited
Biological Process (BP) cell projection organization 0.01764 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.02496 Informative Inherited
Biological Process (BP) muscle structure development 0.03499 Informative Inherited
Biological Process (BP) reproductive structure development 0.04151 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.01095 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.01528 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.001623 Informative Inherited
Biological Process (BP) gland development 0.004895 Informative Inherited
Biological Process (BP) cell death 0.00768 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.5707 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.00144 Informative Inherited
Biological Process (BP) cellular component movement 0.05527 Informative Inherited
Biological Process (BP) locomotion 0.003655 Informative Inherited
Biological Process (BP) epithelium development 0.001074 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.07541 Informative Inherited
Biological Process (BP) skeletal system development 5.577e-08 Highly Informative Direct
Biological Process (BP) ossification 1.709e-05 Highly Informative Direct
Biological Process (BP) angiogenesis 3.107e-05 Highly Informative Direct
Biological Process (BP) negative regulation of immune system process 6.801e-05 Highly Informative Direct
Biological Process (BP) heart morphogenesis 5.325e-05 Highly Informative Direct
Biological Process (BP) chemotaxis 0.000131 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) cell proliferation 0.0002346 Highly Informative Direct
Biological Process (BP) protein processing 3.435e-11 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0003984 Highly Informative Direct
Biological Process (BP) neural tube development 0.0001327 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 6.343e-09 Highly Informative Direct
Biological Process (BP) lung development 0.0004668 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 3.924e-10 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 1.868e-07 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 1.483e-05 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 1.736e-05 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 2.704e-08 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0004823 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 2.769e-05 Highly Informative Direct
Biological Process (BP) regulation of T cell activation 3.817e-09 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 2.881e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 5.38e-07 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 1.661e-05 Highly Informative Direct
Biological Process (BP) mesenchyme development 5.104e-05 Highly Informative Direct
Biological Process (BP) renal system development 6.023e-05 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 7.409e-08 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 2.964e-07 Highly Informative Direct
Biological Process (BP) regulation of organ morphogenesis 0.0005912 Highly Informative Direct
Biological Process (BP) neuron projection development 0.1919 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 0.1298 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.001124 Highly Informative Inherited
Biological Process (BP) development of primary male sexual characteristics 0.01836 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.04558 Highly Informative Inherited
Biological Process (BP) stem cell development 0.003097 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.004057 Highly Informative Inherited
Biological Process (BP) epithelial tube morphogenesis 0.01861 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.01516 Highly Informative Inherited
Molecular Function (MF) binding 0.6877 Least Informative Inherited
Molecular Function (MF) cation binding 1.384e-05 Moderately Informative Direct
Molecular Function (MF) receptor binding 1.821e-06 Informative Direct
Molecular Function (MF) transition metal ion binding 0.02724 Informative Inherited
Molecular Function (MF) calcium ion binding 1.309e-10 Highly Informative Direct
Cellular Component (CC) membrane 0.1969 Least Informative Inherited
Cellular Component (CC) extracellular region part 5.142e-05 Moderately Informative Direct
Cellular Component (CC) cell surface 0.0004827 Informative Direct
Cellular Component (CC) extracellular matrix 1.301e-06 Informative Direct
Cellular Component (CC) membrane raft 7.971e-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)endocrine/exocrine gland phenotype0Moderately 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 groups7.058e-08Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.005953Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides1.722e-11Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases4.02e-11Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.0006855Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)DNA helicase3.623e-14InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.0006979InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor1.002e-06Highly InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0.4851Highly 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 damage0.00545Moderately InformativeInherited
Biological processIon transport0.009384Moderately InformativeInherited
Biological processDNA replication0InformativeDirect
Biological processDNA recombination8.453e-06InformativeDirect
Biological processIntron homing0Highly InformativeDirect
Biological processSOS response8.467e-06Highly InformativeDirect
Biological processHydrogen ion transport0.0003564Highly InformativeDirect
Cellular componentMembrane5.408e-05Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell membrane3.951e-09Moderately InformativeDirect
Cellular componentPrimosome0Highly InformativeDirect
DomainSignal2.09e-05Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionZinc1.502e-05Least InformativeDirect
Molecular functionNucleotide-binding2.532e-05Least InformativeDirect
Molecular functionCalcium7.327e-09Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0.8049Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase2.453e-14Moderately InformativeDirect
Post-translational modificationProtease1.253e-07Moderately InformativeDirect
Post-translational modificationIsomerase0.004982Moderately InformativeInherited
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationEndonuclease0.0004405InformativeDirect
Post-translational modificationInitiation factor0.0006313InformativeDirect
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 ]