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 (198) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,184 1,055 8
Proteins 1,184 1,054 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) cellular component organization or biogenesis 4.174e-11 Least Informative Direct
Biological Process (BP) developmental process 5.138e-05 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0003507 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.000896 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.07318 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.001892 Least Informative Inherited
Biological Process (BP) response to stimulus 0.002111 Least Informative Inherited
Biological Process (BP) positive regulation of cellular process 3.872e-12 Moderately Informative Direct
Biological Process (BP) cell differentiation 2.539e-09 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 2.853e-07 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 6.115e-07 Moderately Informative Direct
Biological Process (BP) nervous system development 2.341e-06 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 8.246e-06 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 1.317e-05 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.2009 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.3292 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.9979 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1055 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.02802 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.01204 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.1212 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.06318 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.4637 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.2159 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.01533 Moderately Informative Inherited
Biological Process (BP) locomotion 0 Informative Direct
Biological Process (BP) generation of neurons 0 Informative Direct
Biological Process (BP) cell projection organization 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 1.348e-14 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 3.156e-14 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 3.329e-14 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 6.117e-14 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 1.45e-13 Informative Direct
Biological Process (BP) cellular component morphogenesis 2.366e-12 Informative Direct
Biological Process (BP) response to external stimulus 1.021e-11 Informative Direct
Biological Process (BP) actin filament-based process 5.209e-08 Informative Direct
Biological Process (BP) cytoskeleton organization 3.759e-07 Informative Direct
Biological Process (BP) cellular component disassembly 3.161e-05 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0001277 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.0007319 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.001731 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.006836 Informative Inherited
Biological Process (BP) regulation of response to stress 0.01264 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.02164 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.002445 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.1013 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.008 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.008056 Informative Inherited
Biological Process (BP) regulation of locomotion 0.008668 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.109 Informative Inherited
Biological Process (BP) axonogenesis 0 Highly Informative Direct
Biological Process (BP) actin filament organization 6.117e-14 Highly Informative Direct
Biological Process (BP) chemotaxis 8.81e-13 Highly Informative Direct
Biological Process (BP) protein polymerization 4.538e-09 Highly Informative Direct
Biological Process (BP) cellular protein complex disassembly 8.106e-09 Highly Informative Direct
Biological Process (BP) regulation of cell projection organization 3.485e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 2.128e-07 Highly Informative Direct
Biological Process (BP) regulation of protein complex disassembly 3.95e-06 Highly Informative Direct
Biological Process (BP) regulation of actin cytoskeleton organization 6.584e-06 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 8.788e-06 Highly Informative Direct
Biological Process (BP) cellular response to growth factor stimulus 0.0001008 Highly Informative Direct
Biological Process (BP) regulation of cellular component size 0.0002329 Highly Informative Direct
Biological Process (BP) regulation of protein complex assembly 0.0002961 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.0003697 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis 0.006156 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.01137 Highly Informative Inherited
Molecular Function (MF) binding 5.814e-05 Least Informative Direct
Molecular Function (MF) protein binding 0.0002124 Moderately Informative Direct
Molecular Function (MF) cation binding 0.0008161 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.0054 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.2326 Moderately Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) peptidase regulator activity 1.461e-06 Informative Direct
Molecular Function (MF) carboxylic acid binding 1.658e-06 Informative Direct
Molecular Function (MF) enzyme inhibitor activity 8.004e-06 Informative Direct
Molecular Function (MF) lipid binding 0.00282 Informative Inherited
Molecular Function (MF) cysteine-type endopeptidase regulator activity involved in apoptotic process 2.163e-10 Highly Informative Direct
Molecular Function (MF) cysteine-type endopeptidase inhibitor activity 5.966e-10 Highly Informative Direct
Molecular Function (MF) monocarboxylic acid binding 7.669e-09 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol binding 7.428e-07 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) cytoskeleton 1.814e-08 Moderately Informative Direct
Cellular Component (CC) cell projection 0.00596 Moderately Informative Inherited
Cellular Component (CC) actin cytoskeleton 8.763e-09 Informative Direct
Cellular Component (CC) cell cortex 1.417e-06 Informative Direct
Cellular Component (CC) cell leading edge 0.0002371 Informative Direct
Cellular Component (CC) cell projection part 0.01114 Informative Inherited
Cellular Component (CC) ruffle 4.465e-05 Highly Informative Direct
Cellular Component (CC) lamellipodium 0.0001423 Highly Informative Direct

Document: GO annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)fertile0Least InformativeDirect

Document: FP 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)plant cell0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)petal0Least InformativeDirect
Plant ANatomical entity (PAN)collective leaf structure0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant ANatomical entity (PAN)microgametophyte0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell7.876e-05Moderately InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentCytoplasm6.203e-12Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
DomainRepeat7.78e-15Least InformativeDirect
Molecular functionZinc0.04441Least InformativeInherited
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionActin-binding0InformativeDirect
Molecular functionLIM domain0Highly InformativeDirect
Post-translational modificationActin capping0Highly InformativeDirect
Post-translational modificationPhosphoprotein9.027e-15Least 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) · Fly Phenotype (FP) · 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) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]