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 9.12e-08 Least Informative Direct
Biological Process (BP) developmental process 5.355e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0002255 Least Informative Direct
Biological Process (BP) protein metabolic process 0.3255 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.249 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.03764 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1191 Least Informative Inherited
Biological Process (BP) response to stimulus 0.4789 Least Informative Inherited
Biological Process (BP) localization 0.9285 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.782 Least Informative Inherited
Biological Process (BP) reproduction 0.0005151 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 1.741e-06 Moderately Informative Direct
Biological Process (BP) cell differentiation 1.087e-12 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 1.319e-06 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0005707 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 0.0003949 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 1.619e-06 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 1.434e-05 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.02443 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.2809 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.004163 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.05914 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.0323 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.04356 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.002472 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.4353 Moderately Informative Inherited
Biological Process (BP) organ development 0.9885 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1156 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.005941 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002431 Moderately Informative Inherited
Biological Process (BP) tissue development 0.05447 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.877 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.01734 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.03773 Moderately Informative Inherited
Biological Process (BP) apoptotic process 6.933e-05 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0002666 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0004645 Informative Direct
Biological Process (BP) tube development 0.0008186 Informative Direct
Biological Process (BP) growth 0.0001915 Informative Direct
Biological Process (BP) regulation of locomotion 8.078e-05 Informative Direct
Biological Process (BP) regulation of cell proliferation 7.458e-08 Informative Direct
Biological Process (BP) regulation of apoptotic process 1.249e-05 Informative Direct
Biological Process (BP) embryonic organ development 7.926e-06 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.0001133 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.000129 Informative Direct
Biological Process (BP) generation of neurons 6.541e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0001202 Informative Direct
Biological Process (BP) negative regulation of developmental process 8.504e-05 Informative Direct
Biological Process (BP) positive regulation of developmental process 1.517e-07 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.0003718 Informative Direct
Biological Process (BP) regulation of cellular component movement 5.161e-05 Informative Direct
Biological Process (BP) localization of cell 0.0004851 Informative Direct
Biological Process (BP) epithelium development 0.000342 Informative Direct
Biological Process (BP) negative regulation of cell death 0.000205 Informative Direct
Biological Process (BP) cardiovascular system development 2.547e-06 Informative Direct
Biological Process (BP) cell projection organization 0.02595 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.03208 Informative Inherited
Biological Process (BP) muscle structure development 0.04428 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2477 Informative Inherited
Biological Process (BP) reproductive system development 0.002745 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.001988 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.006594 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.004664 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.006061 Informative Inherited
Biological Process (BP) sensory organ development 0.002386 Informative Inherited
Biological Process (BP) central nervous system development 0.00179 Informative Inherited
Biological Process (BP) gland development 0.005251 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.001296 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.487 Informative Inherited
Biological Process (BP) cellular component movement 0.07601 Informative Inherited
Biological Process (BP) locomotion 0.006641 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.01642 Informative Inherited
Biological Process (BP) skeletal system development 2.897e-07 Highly Informative Direct
Biological Process (BP) ossification 2.554e-05 Highly Informative Direct
Biological Process (BP) angiogenesis 3.556e-05 Highly Informative Direct
Biological Process (BP) negative regulation of immune system process 0.0001137 Highly Informative Direct
Biological Process (BP) heart morphogenesis 0.0003178 Highly Informative Direct
Biological Process (BP) chemotaxis 0.000297 Highly Informative Direct
Biological Process (BP) pattern specification process 0 Highly Informative Direct
Biological Process (BP) protein processing 6.035e-11 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0005258 Highly Informative Direct
Biological Process (BP) neural tube development 0.0001538 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 1.02e-08 Highly Informative Direct
Biological Process (BP) respiratory tube development 0.0005589 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 7.516e-10 Highly Informative Direct
Biological Process (BP) cellular hormone metabolic process 2.613e-07 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 2.288e-05 Highly Informative Direct
Biological Process (BP) cell fate commitment 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 3.666e-05 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0005585 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 4.324e-07 Highly Informative Direct
Biological Process (BP) regulation of T cell activation 6.264e-09 Highly Informative Direct
Biological Process (BP) negative regulation of cell activation 3.845e-06 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 7.743e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 7.17e-07 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.503e-05 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.000117 Highly Informative Direct
Biological Process (BP) respiratory system development 7.301e-05 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 0.0001003 Highly Informative Direct
Biological Process (BP) axon development 9.199e-06 Highly Informative Direct
Biological Process (BP) renal system development 0.0001446 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.0002076 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 1.278e-07 Highly Informative Direct
Biological Process (BP) regulation of leukocyte differentiation 3.244e-06 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 0.08047 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.00168 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.03125 Highly Informative Inherited
Biological Process (BP) stem cell development 0.003401 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.05215 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.03518 Highly Informative Inherited
Molecular Function (MF) binding 0.4848 Least Informative Inherited
Molecular Function (MF) cation binding 5.693e-07 Moderately Informative Direct
Molecular Function (MF) receptor binding 3.44e-06 Informative Direct
Molecular Function (MF) calcium ion binding 6.998e-05 Highly Informative Direct
Cellular Component (CC) membrane 0.3558 Least Informative Inherited
Cellular Component (CC) extracellular region part 0.000289 Moderately Informative Direct
Cellular Component (CC) cell surface 0.0008563 Informative Direct
Cellular Component (CC) extracellular matrix 2.255e-06 Informative Direct
Cellular Component (CC) membrane raft 1.291e-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 ]