SUPERFAMILY 1.75 HMM library and genome assignments server


Arp2/3 complex 16 kDa subunit ARPC5 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   alpha-alpha superhelix [ 48370] (24)
Superfamily:   Arp2/3 complex 16 kDa subunit ARPC5 [ 69103]
Families:   Arp2/3 complex 16 kDa subunit ARPC5 [ 69104]


Superfamily statistics
Genomes (398) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 561 495 1
Proteins 559 493 1


Functional annotation
General category Other
Detailed category Viral proteins

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)single-organism cellular process0.035660.2744Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0014580.01834Least InformativeInherited
Biological Process (BP)organelle organization0.0012120.003537Moderately InformativeInherited
Biological Process (BP)cytoskeleton organization1.671e-062.169e-05InformativeDirect
Biological Process (BP)actin filament-based process3.834e-071.161e-06InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle1.695e-081.246e-06Least InformativeDirect
Cellular Component (CC)protein complex5.549e-071.004e-05Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.0003530.00123Least InformativeInherited
Cellular Component (CC)cytoskeleton1.147e-118.463e-10Moderately InformativeDirect
Cellular Component (CC)cell projection8.023e-075.583e-06Moderately InformativeDirect
Cellular Component (CC)actin cytoskeleton1.373e-151.284e-14InformativeDirect
Cellular Component (CC)cell leading edge3.13e-122.136e-11InformativeDirect
Cellular Component (CC)Arp2/3 protein complex00Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism cellular process 0.2744 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.01834 Least Informative Inherited
Biological Process (BP) organelle organization 0.003537 Moderately Informative Inherited
Biological Process (BP) cytoskeleton organization 2.169e-05 Informative Direct
Biological Process (BP) actin filament-based process 1.161e-06 Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.246e-06 Least Informative Direct
Cellular Component (CC) protein complex 1.004e-05 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00123 Least Informative Inherited
Cellular Component (CC) cytoskeleton 8.463e-10 Moderately Informative Direct
Cellular Component (CC) cell projection 5.583e-06 Moderately Informative Direct
Cellular Component (CC) actin cytoskeleton 1.284e-14 Informative Direct
Cellular Component (CC) cell leading edge 2.136e-11 Informative Direct
Cellular Component (CC) Arp2/3 protein complex 0 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell projection3.155e-14Moderately InformativeDirect
Molecular functionActin-binding0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR006789 SSF69103 Protein matches
Abstract The Arp2/3 protein complex has been implicated in the control of actin polymerization. The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc. The precise function of p16-Arc is currently unknown. Its structure consists of a single domain containing a bundle of seven alpha helices [PubMed9230079, PubMed11721045].

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-quality) · Gene Ontology (high-coverage) · 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 1 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 Arp2/3 complex 16 kDa subunit ARPC5 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 1 hidden Markov models representing the Arp2/3 complex 16 kDa subunit ARPC5 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-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]