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ENTH/VHS domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   alpha-alpha superhelix [ 48370] (24)
Superfamily:   ENTH/VHS domain [ 48464] (4)
Families:   ENTH domain [ 48465]
  VHS domain [ 48468] (5)
  Phosphoinositide-binding clathrin adaptor, N-terminal domain [ 100911] (2)
  RPR domain (SMART 00582 ) [ 109975]


Superfamily statistics
Genomes (503) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 9,789 9,644 14
Proteins 9,756 9,623 14


Functional annotation
General category Processes_IC
Detailed category Transport

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) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.2278 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.2119 Least Informative Inherited
Biological Process (BP) biological regulation 0.5143 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.7056 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.8879 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.9473 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.7327 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular localization 0.00000001297 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.000469 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.0009789 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.5305 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1105 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.01742 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.1734 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.008618 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.2089 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.9965 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.01817 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.0485 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.2461 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.2443 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.7814 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.177 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.03985 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.1905 Moderately Informative Inherited
Biological Process (BP) cell communication 0.02676 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.01122 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.1715 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.004296 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.8185 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1341 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.859 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.9331 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 0.04666 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.363 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.416 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.5866 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.7447 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.00855 Moderately Informative Inherited
Biological Process (BP) vesicle-mediated transport 0 Informative Direct
Biological Process (BP) secretion by cell 0.000000000000003764 Informative Direct
Biological Process (BP) membrane organization 0.00000001519 Informative Direct
Biological Process (BP) cell-cell signaling 0.00000002472 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.0000001855 Informative Direct
Biological Process (BP) cellular protein complex assembly 0.00001577 Informative Direct
Biological Process (BP) positive regulation of signal transduction 0.0003559 Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.01795 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.2098 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.2729 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.3941 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 1 Informative Inherited
Biological Process (BP) organelle localization 0.05225 Informative Inherited
Biological Process (BP) proteolysis 0.01514 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.04874 Informative Inherited
Biological Process (BP) regulation of cell differentiation 0.2208 Informative Inherited
Biological Process (BP) cytoskeleton organization 0.2425 Informative Inherited
Biological Process (BP) transmembrane transport 0.2115 Informative Inherited
Biological Process (BP) intracellular protein transport 0.007797 Informative Inherited
Biological Process (BP) regulation of proteolysis 0.1269 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.1772 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.1841 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.2421 Informative Inherited
Biological Process (BP) supramolecular fiber organization 0.003062 Informative Inherited
Biological Process (BP) protein localization to organelle 0.01845 Informative Inherited
Biological Process (BP) dephosphorylation 0.005812 Informative Inherited
Biological Process (BP) transcription, DNA-templated 0.007429 Informative Inherited
Biological Process (BP) actin filament-based process 0.003382 Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0 Highly Informative Direct
Biological Process (BP) vesicle localization 0 Highly Informative Direct
Biological Process (BP) trans-synaptic signaling 0.00000000000004133 Highly Informative Direct
Biological Process (BP) signal release 0.00000000003381 Highly Informative Direct
Biological Process (BP) vesicle organization 0.00000000008624 Highly Informative Direct
Biological Process (BP) autophagy 0.00000000537 Highly Informative Direct
Biological Process (BP) mRNA processing 0.00000001985 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.00000008303 Highly Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 0.0001558 Highly Informative Direct
Biological Process (BP) actin filament organization 0.0003782 Highly Informative Direct
Biological Process (BP) protein dephosphorylation 0.0008338 Highly Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.8486 Highly Informative Inherited
Biological Process (BP) modification-dependent macromolecule catabolic process 0.03805 Highly Informative Inherited
Biological Process (BP) proteolysis involved in cellular protein catabolic process 0.0829 Highly Informative Inherited
Biological Process (BP) protein import 0.001682 Highly Informative Inherited
Biological Process (BP) positive regulation of proteolysis 0.002473 Highly Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.02306 Highly Informative Inherited
Biological Process (BP) Golgi vesicle transport 0.7732 Highly Informative Inherited
Molecular Function (MF) binding 0.00000004587 Least Informative Direct
Molecular Function (MF) anion binding 0.00000238 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.5015 Moderately Informative Inherited
Molecular Function (MF) phospholipid binding 0.000000000000001646 Informative Direct
Molecular Function (MF) RNA binding 0.0007094 Informative Direct
Molecular Function (MF) enzyme binding 0.01144 Informative Inherited
Molecular Function (MF) macromolecular complex binding 0.0182 Informative Inherited
Molecular Function (MF) protein domain specific binding 0.0004716 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 0.00007615 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.1091 Least Informative Inherited
Cellular Component (CC) membrane 0.002292 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.006589 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) vesicle 0.000000000000003141 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.00000001345 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.6584 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.138 Moderately Informative Inherited
Cellular Component (CC) transferase complex 0.06902 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 0.009802 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 0.03878 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.2976 Moderately Informative Inherited
Cellular Component (CC) cytoplasmic vesicle part 0.00000000006593 Informative Direct
Cellular Component (CC) membrane region 0.00000001757 Informative Direct
Cellular Component (CC) cytoplasmic region 0.000001505 Informative Direct
Cellular Component (CC) endosome 0.000001898 Informative Direct
Cellular Component (CC) Golgi apparatus 0.000002225 Informative Direct
Cellular Component (CC) synapse 0.000009873 Informative Direct
Cellular Component (CC) transferase complex, transferring phosphorus-containing groups 0.0002309 Informative Direct
Cellular Component (CC) plasma membrane region 0.01938 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.007156 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.03508 Informative Inherited
Cellular Component (CC) cortical actin cytoskeleton 0.0000005482 Highly Informative Direct
Cellular Component (CC) coated vesicle 0.00004246 Highly Informative Direct
Cellular Component (CC) Golgi subcompartment 0.0009648 Highly Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body region phenotype0.02868Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.9938Least InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0.1704Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal glucose homeostasis0.2582InformativeInherited
Mammalian Phenotype (MP)postnatal growth retardation0.000001451Highly InformativeDirect
Mammalian Phenotype (MP)decreased birth weight0.0007709Highly InformativeDirect
Mammalian Phenotype (MP)hypoglycemia0.0009495Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)larval lethal0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.00008394Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.005922Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.2537Least InformativeInherited
Worm Phenotype (WP)apoptosis variant0.000003849Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant0.01916Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.3727Moderately InformativeInherited
Worm Phenotype (WP)accumulated germline cell corpses0.00000009507InformativeDirect
Worm Phenotype (WP)aldicarb response variant0.001005InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.008462InformativeInherited
Worm Phenotype (WP)drug resistant0.125InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0.000007563Highly InformativeDirect
Worm Phenotype (WP)aldicarb resistant0.0003622Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0.2695Least InformativeInherited
Fly Anatomy (FA)somatic cell0.3479Least InformativeInherited
Fly Anatomy (FA)multi-tissue structure0.4731Least InformativeInherited
Fly Anatomy (FA)epithelium0.1491Moderately InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.3101Moderately InformativeInherited
Fly Anatomy (FA)imaginal precursor0.0164InformativeInherited
Fly Anatomy (FA)prepupa0.01973InformativeInherited
Fly Anatomy (FA)pupa0.02477InformativeInherited
Fly Anatomy (FA)cuboidal/columnar epithelium0.1148InformativeInherited
Fly Anatomy (FA)eye disc0.0009609Highly InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect
Zebrafish Anatomy (ZA)digestive system0InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processmRNA processing0.000002959InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
DomainZinc-finger0.0000008622Moderately InformativeDirect
DomainCoiled coil0.00003892Moderately InformativeDirect
DomainSH3 domain0InformativeDirect
Molecular functionZinc0.0006575Least InformativeDirect
Molecular functionLipid-binding0Moderately InformativeDirect
Post-translational modificationActin-binding0.000001262InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation0.00000000000003378Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.00001016Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR008942 SSF48464 Protein matches
Abstract

This entry represents domains with a multi-helical, alpha-alpha 2-layered structural fold as found in: the ENTH domain of Epsin; the VHS domain of Hrs, Tom1, and ADP-ribosylation factors; the RPR domain of PCF11 protein; and the N-terminal domain of phosphoinositide-binding clathrin adaptor.

The epsin NH2-terminal homology (ENTH) domain is a membrane interacting module composed of a superhelix of alpha-helices. It is present at the NH2-terminus of proteins that often contain consensus sequences for binding to clathrin coat components and their accessory factors, and therefore function as endocytic adaptors. ENTH domain containing proteins have additional roles in signalling and actin regulation and may have yet other actions in the nucleus. The ENTH domain is structurally similar to the VHS domain.

The ENTH domain is approximately 150 amino acids long. The ENTH domain forms a compact globular structure, composed of eight alpha-helices connected by loops of varying length. Three helical hairpins that are stacked consecutively with a right-handed twist determine the general topology of the domain. This stacking gives the ENTH domain a rectangular appearance when viewed face on. The most highly conserved amino acids fall roughly into two classes: internal residues that are involved in packing and therefore are necessary for structural integrity, and solvent accessible residues that may be involved in protein-protein interactions [PubMed11911874].

VHS domains are found at the N-termini of select proteins involved in intracellular membrane trafficking. The domain consists of eight helices arranged in a superhelix. The surface of the domain has two main features: a basic patch on one side due to several conserved positively charged residues on helix 3 and a negatively charged ridge on the opposite side, formed by residues on helix 2. Comparison of the two VHS domains and the ENTH domain reveals a conserved surface, composed of helices 2 and 4, that is utilised for protein-protein interactions. In addition, VHS domain-containing proteins are also often localized to membranes. It has therefore been suggested that the conserved positively charged surface of helix 3 in VHS and ENTH domains plays a role in membrane binding [PubMed10985773].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 10 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 ENTH/VHS 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 10 hidden Markov models representing the ENTH/VHS 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]