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 (875) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,730 8,058 9
Proteins 2,578 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 0.00000003118 Least Informative Direct
Biological Process (BP) developmental process 0.000000005142 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.8237 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.04989 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2787 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.01178 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.3325 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.01845 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1199 Least Informative Inherited
Biological Process (BP) response to stimulus 0.4862 Least Informative Inherited
Biological Process (BP) localization 0.9568 Least Informative Inherited
Biological Process (BP) regulation of signal transduction 0.000002113 Moderately Informative Direct
Biological Process (BP) reproductive process 0.0001458 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.000000000001396 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0009407 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 0.0005683 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.000001872 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.000008373 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.3481 Moderately Informative Inherited
Biological Process (BP) gene expression 0.003185 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.02725 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.008839 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.02959 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.01842 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.003208 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8782 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.04313 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.00468 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.1446 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.1189 Moderately Informative Inherited
Biological Process (BP) organ development 0.9684 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.18 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.006966 Moderately Informative Inherited
Biological Process (BP) tissue development 0.109 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.06387 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.03508 Moderately Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.0004889 Informative Direct
Biological Process (BP) apoptotic process 0.0000716 Informative Direct
Biological Process (BP) cell proliferation 0.0001045 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002985 Informative Direct
Biological Process (BP) regulation of hormone levels 0.0007467 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0005275 Informative Direct
Biological Process (BP) tube development 0.0009573 Informative Direct
Biological Process (BP) growth 0.0002018 Informative Direct
Biological Process (BP) regulation of locomotion 0.00008088 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.00000008263 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.00001327 Informative Direct
Biological Process (BP) single organism reproductive process 0.00007492 Informative Direct
Biological Process (BP) embryonic organ development 0.000005097 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.00007855 Informative Direct
Biological Process (BP) generation of neurons 0.00006769 Informative Direct
Biological Process (BP) tissue morphogenesis 0.00007732 Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.0002404 Informative Direct
Biological Process (BP) regulation of cell activation 0.0000001983 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.0001309 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.0000002357 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.0000001544 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0.0001842 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.00004962 Informative Direct
Biological Process (BP) protein maturation 0.00000002461 Informative Direct
Biological Process (BP) localization of cell 0.0005065 Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.0004724 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0004252 Informative Direct
Biological Process (BP) cardiovascular system development 0.000002651 Informative Direct
Biological Process (BP) positive regulation of immune system process 0.007128 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.001131 Informative Inherited
Biological Process (BP) regulation of protein localization 0.001131 Informative Inherited
Biological Process (BP) cellular component movement 0.03607 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.03353 Informative Inherited
Biological Process (BP) cell projection organization 0.0105 Informative Inherited
Biological Process (BP) muscle structure development 0.02678 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.01414 Informative Inherited
Biological Process (BP) sensory organ development 0.001577 Informative Inherited
Biological Process (BP) gland development 0.01602 Informative Inherited
Biological Process (BP) reproductive structure development 0.09275 Informative Inherited
Biological Process (BP) central nervous system development 0.002124 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.542 Informative Inherited
Biological Process (BP) locomotion 0.006583 Informative Inherited
Biological Process (BP) epithelium development 0.002015 Informative Inherited
Biological Process (BP) organ morphogenesis 0.001228 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.01766 Informative Inherited
Biological Process (BP) skeletal system development 0.0000003037 Highly Informative Direct
Biological Process (BP) ossification 0.00003243 Highly Informative Direct
Biological Process (BP) angiogenesis 0.00002646 Highly Informative Direct
Biological Process (BP) kidney development 0.0008847 Highly Informative Direct
Biological Process (BP) negative regulation of leukocyte activation 0.0007506 Highly Informative Direct
Biological Process (BP) heart morphogenesis 0.0003095 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0002741 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0006069 Highly Informative Direct
Biological Process (BP) neural tube development 0.0001605 Highly Informative Direct
Biological Process (BP) respiratory tube development 0.0004214 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 0.0000000008052 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 0.0000002575 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 0.00001908 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.00006299 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-templated 0.000769 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.0000004011 Highly Informative Direct
Biological Process (BP) regulation of T cell activation 0.000000006715 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 0.00005396 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.000009934 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.00002496 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.00002167 Highly Informative Direct
Biological Process (BP) respiratory system development 0.00007405 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 0.00009167 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.0001778 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 0.000000126 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 0.000003128 Highly Informative Direct
Biological Process (BP) neuron projection development 0.184 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.001372 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.07968 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.006376 Highly Informative Inherited
Biological Process (BP) stem cell development 0.002963 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.003096 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.03444 Highly Informative Inherited
Molecular Function (MF) binding 0.5134 Least Informative Inherited
Molecular Function (MF) cation binding 0.0000006211 Moderately Informative Direct
Molecular Function (MF) receptor binding 0.000003605 Informative Direct
Molecular Function (MF) calcium ion binding 0.00006979 Highly Informative Direct
Cellular Component (CC) membrane 0.3646 Least Informative Inherited
Cellular Component (CC) extracellular region part 0.000299 Moderately Informative Direct
Cellular Component (CC) membrane region 0.003612 Moderately Informative Inherited
Cellular Component (CC) extracellular matrix 0.000001973 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0.00000000001853Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.00000000002567Least 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 ATPase0.0000003949Highly 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 variant0.000000008407Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.00000001472Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.00001403Moderately InformativeDirect
Worm Phenotype (WP)body length variant0.0000000003673InformativeDirect
Worm Phenotype (WP)body width variant0.0000000005843InformativeDirect
Worm Phenotype (WP)molt variant0Highly InformativeDirect
Worm Phenotype (WP)small0.000000000000244Highly InformativeDirect
Worm Phenotype (WP)male tail development variant0.0000000000003481Highly InformativeDirect
Worm Phenotype (WP)cell secretion variant0.000000000003131Highly InformativeDirect
Worm Phenotype (WP)body vacuole0.00000006465Highly InformativeDirect
Worm Phenotype (WP)alimentary system morphology variant0.0000001851Highly 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 groups0.0000001994Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.002172Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.0000000000005769Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.00000000003678Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.0009918Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)DNA helicase0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.00005856InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor0.0000000161Highly 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 damage0.0005853Moderately InformativeDirect
Biological processIon transport0.009806Moderately InformativeInherited
Biological processDNA replication0InformativeDirect
Biological processDNA recombination0.000008953InformativeDirect
Biological processIntron homing0Highly InformativeDirect
Biological processSOS response0.0001948Highly InformativeDirect
Biological processHydrogen ion transport0.0003638Highly InformativeDirect
Cellular componentMembrane0.00006614Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell membrane0.000000004866Moderately InformativeDirect
Cellular componentPrimosome0Highly InformativeDirect
DomainSignal0.00003269Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionNucleotide-binding0.00003481Least InformativeDirect
Molecular functionCalcium0.000000009579Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0.827Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0.00000000000002668Moderately InformativeDirect
Post-translational modificationProtease0.0000001203Moderately InformativeDirect
Post-translational modificationIsomerase0.005379Moderately InformativeInherited
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationEndonuclease0.000479InformativeDirect
Post-translational modificationInitiation factor0.0006617InformativeDirect
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 replication0.00000000000002967Highly 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 ]