SUPERFAMILY 1.75 HMM library and genome assignments server


VHP, Villin headpiece domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   VHP, Villin headpiece domain [ 47049]
Superfamily:   VHP, Villin headpiece domain [ 47050]
Families:   VHP, Villin headpiece domain [ 47051] (4)


Superfamily statistics
Genomes (227) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,321 1,342 8
Proteins 1,321 1,341 8


Functional annotation
General category Processes_IC
Detailed category Cell motility

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) regulation of metabolic process 0.0009671 Least Informative Direct
Biological Process (BP) multicellular organismal process 5.898e-08 Least Informative Direct
Biological Process (BP) developmental process 9.277e-10 Least Informative Direct
Biological Process (BP) single-organism cellular process 8.39e-07 Least Informative Direct
Biological Process (BP) response to stimulus 2.434e-06 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.04885 Least Informative Inherited
Biological Process (BP) nervous system development 5.957e-05 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 4.184e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 7.271e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.722e-15 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 4.76e-07 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.156e-11 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 0.05978 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.7572 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.06317 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.03843 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.06523 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.007683 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.03063 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.2255 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.0778 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.9637 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.07546 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.1496 Moderately Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0 Informative Direct
Biological Process (BP) cellular component movement 0 Informative Direct
Biological Process (BP) cytoskeleton organization 3.283e-10 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.0007599 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) cellular component disassembly 5.398e-05 Informative Direct
Biological Process (BP) actin filament-based process 9.449e-10 Informative Direct
Biological Process (BP) cell projection organization 0 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 1.922e-15 Informative Direct
Biological Process (BP) cellular component morphogenesis 3.78e-12 Informative Direct
Biological Process (BP) locomotion 0 Informative Direct
Biological Process (BP) regulation of locomotion 0.0002689 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 2.046e-05 Informative Direct
Biological Process (BP) generation of neurons 0 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 1.149e-06 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.0002555 Informative Direct
Biological Process (BP) regulation of cell development 0.0004664 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 1.376e-05 Informative Direct
Biological Process (BP) regulation of response to stress 5.215e-05 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0002215 Informative Direct
Biological Process (BP) protein complex assembly 0.4437 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.3727 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.001264 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.002374 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.0212 Informative Inherited
Biological Process (BP) chemotaxis 4.64e-11 Highly Informative Direct
Biological Process (BP) actin filament organization 0 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 9.67e-05 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 5.658e-10 Highly Informative Direct
Biological Process (BP) regulation of actin cytoskeleton organization 3.486e-10 Highly Informative Direct
Biological Process (BP) negative regulation of protein complex disassembly 2.665e-08 Highly Informative Direct
Biological Process (BP) cellular protein complex disassembly 5.05e-09 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in neuron differentiation 5.305e-06 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 2.288e-05 Highly Informative Direct
Biological Process (BP) protein polymerization 4.015e-09 Highly Informative Direct
Biological Process (BP) regulation of wound healing 6.33e-14 Highly Informative Direct
Biological Process (BP) regulation of protein depolymerization 1.085e-08 Highly Informative Direct
Biological Process (BP) cellular response to growth factor stimulus 0.003835 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.004219 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.03148 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.008253 Highly Informative Inherited
Biological Process (BP) axon development 0.002229 Highly Informative Inherited
Molecular Function (MF) binding 4.128e-07 Least Informative Direct
Molecular Function (MF) enzyme regulator activity 0.002046 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.01155 Moderately Informative Inherited
Molecular Function (MF) cation binding 0.005682 Moderately Informative Inherited
Molecular Function (MF) enzyme inhibitor activity 1.251e-06 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 4.403e-07 Informative Direct
Molecular Function (MF) peptidase regulator activity 1.694e-07 Informative Direct
Molecular Function (MF) lipid binding 0.003164 Informative Inherited
Molecular Function (MF) protein dimerization activity 0.1992 Informative Inherited
Molecular Function (MF) actin binding 0 Highly Informative Direct
Molecular Function (MF) cysteine-type endopeptidase inhibitor activity 1.523e-10 Highly Informative Direct
Molecular Function (MF) calcium ion binding 3.647e-06 Highly Informative Direct
Molecular Function (MF) monocarboxylic acid binding 1.435e-09 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol binding 3.369e-07 Highly Informative Direct
Molecular Function (MF) protein homodimerization activity 0.0004737 Highly Informative Direct
Molecular Function (MF) cysteine-type endopeptidase regulator activity involved in apoptotic process 7.391e-11 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.7416 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoskeleton 4.365e-07 Moderately Informative Direct
Cellular Component (CC) cell projection 6.291e-05 Moderately Informative Direct
Cellular Component (CC) actin cytoskeleton 4.676e-15 Informative Direct
Cellular Component (CC) cell leading edge 0.0001178 Informative Direct
Cellular Component (CC) ruffle 0.0002264 Highly Informative Direct
Cellular Component (CC) actin filament 7.746e-05 Highly Informative Direct
Cellular Component (CC) microvillus 1.729e-06 Highly Informative Direct

Document: GO annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)alimentary system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)intestine0Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentCytoplasm7.774e-12Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Coding sequence diversityAlternative splicing0Least InformativeDirect
DomainRepeat1.524e-15Least InformativeDirect
DomainLIM domain4.696e-13Highly InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionActin-binding0InformativeDirect
Post-translational modificationActin capping0Highly InformativeDirect
Post-translational modificationPhosphoprotein1.477e-12Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003128 SSF47050 Protein matches
Abstract

Villin is an F-actin bundling protein involved in the maintenance of the microvilli of the absorptive epithelia. The villin-type "headpiece" domain is a modular motif found at the extreme C-terminus of larger "core" domains in over 25 cytoskeletal proteins in plants and animals, often in assocation with the Gelsolin repeat. Although the headpiece is classified as an F-actin-binding domain, it has been shown that not all headpiece domains are intrinsically F-actin-binding motifs, surface charge distribution may be an important element for F-actin recognition [PubMed11977079]. An autonomously folding, 35 residue, thermostable subdomain (HP36) of the full-length 76 amino acid residue villin headpiece, is the smallest known example of a cooperatively folded domain of a naturally occurring protein. The structure of HP36, as determined by NMR spectroscopy, consists of three short helices surrounding a tightly packed hydrophobic core [PubMed12095260].


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) · 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 5 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 VHP, Villin headpiece 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 5 hidden Markov models representing the VHP, Villin headpiece 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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]