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GTPase activation domain, GAP superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   GTPase activation domain, GAP [ 48349]
Superfamily:   GTPase activation domain, GAP [ 48350] (2)
Families:   BCR-homology GTPase activation domain (BH-domain) [ 48351] (5)
  p120GAP domain-like [ 48360] (2)


Superfamily statistics
Genomes (512) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 15,618 39,293 10
Proteins 15,464 39,054 10


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Molecular Function (MF)molecular function regulator0.000000058230Moderately InformativeDirect
Molecular Function (MF)enzyme activator activity0.0094450InformativeInherited
Molecular Function (MF)GTPase regulator activity0.000000000000025740Highly 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) multicellular organismal process 0.0000000000001279 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.00000001337 Least Informative Direct
Biological Process (BP) response to stimulus 0.000000002134 Least Informative Direct
Biological Process (BP) biological regulation 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cell communication 0 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.0000000003083 Moderately Informative Direct
Biological Process (BP) regulation of cell communication 0.000000000000001925 Moderately Informative Direct
Biological Process (BP) regulation of signaling 0 Moderately Informative Direct
Biological Process (BP) regulation of localization 0 Moderately Informative Direct
Biological Process (BP) single organism signaling 0 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.00004588 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 0 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.04639 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9686 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) tissue development 0.2657 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.0367 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.472 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.7107 Moderately Informative Inherited
Biological Process (BP) animal organ development 0.7166 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.08668 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.9769 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) mitotic cell cycle 0.0004653 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.000001524 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.000000000001229 Informative Direct
Biological Process (BP) microtubule-based process 0.0004027 Informative Direct
Biological Process (BP) behavior 0.000007733 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.0007287 Informative Direct
Biological Process (BP) cell cycle process 0.000004403 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.0000008562 Informative Direct
Biological Process (BP) regulation of protein modification process 0.0004718 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0001741 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0000000000005369 Informative Direct
Biological Process (BP) locomotion 0.00000000000002606 Informative Direct
Biological Process (BP) regulation of locomotion 0.0000001418 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0009899 Informative Direct
Biological Process (BP) positive regulation of catalytic activity 0.00000000003353 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.0000001136 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0.0000001128 Informative Direct
Biological Process (BP) cell development 0.0003697 Informative Direct
Biological Process (BP) positive regulation of transport 0 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0008042 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.00000001331 Informative Direct
Biological Process (BP) regulation of hydrolase activity 0.00000000000473 Informative Direct
Biological Process (BP) localization of cell 0.000009221 Informative Direct
Biological Process (BP) regulation of nervous system development 0.000000006394 Informative Direct
Biological Process (BP) epithelium development 0.000009829 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0000000006057 Informative Direct
Biological Process (BP) regulation of intracellular signal transduction 0 Informative Direct
Biological Process (BP) regulation of cell differentiation 0.4779 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.02799 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 1 Informative Inherited
Biological Process (BP) circulatory system development 0.382 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.008285 Informative Inherited
Biological Process (BP) regulation of phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.01082 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.5691 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.004991 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.001223 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.1766 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.1259 Informative Inherited
Biological Process (BP) regulation of transferase activity 1 Informative Inherited
Biological Process (BP) regulation of protein localization 1 Informative Inherited
Biological Process (BP) regulation of peptide transport 1 Informative Inherited
Biological Process (BP) regulation of cellular localization 1 Informative Inherited
Biological Process (BP) growth 0.00163 Informative Inherited
Biological Process (BP) regulation of growth 0.8875 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.6412 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.9347 Informative Inherited
Biological Process (BP) negative regulation of molecular function 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.9808 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.5363 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) actin cytoskeleton organization 0.001357 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.01497 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.632 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.02774 Informative Inherited
Biological Process (BP) phosphorylation 0.03975 Informative Inherited
Biological Process (BP) central nervous system development 0.1036 Informative Inherited
Biological Process (BP) embryo development 0.3296 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) system process 0.1574 Informative Inherited
Biological Process (BP) post-embryonic development 0.03506 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.7001 Informative Inherited
Biological Process (BP) cellular chemical homeostasis 0.06782 Informative Inherited
Biological Process (BP) cytokinesis 0.0000000000006755 Highly Informative Direct
Biological Process (BP) vasculogenesis 0.0004113 Highly Informative Direct
Biological Process (BP) morphogenesis of an epithelium 0.0005906 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.0006671 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 0 Highly Informative Direct
Biological Process (BP) regulation of cell shape 0.000009083 Highly Informative Direct
Biological Process (BP) post-embryonic animal morphogenesis 0.0000003946 Highly Informative Direct
Biological Process (BP) cell growth 0.000006275 Highly Informative Direct
Biological Process (BP) lipid modification 0.000000002935 Highly Informative Direct
Biological Process (BP) regulation of cyclic nucleotide metabolic process 0.00000000000001254 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.00001754 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.000003482 Highly Informative Direct
Biological Process (BP) tube morphogenesis 0.00000004157 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 0.000000005325 Highly Informative Direct
Biological Process (BP) gliogenesis 0.00002898 Highly Informative Direct
Biological Process (BP) regulation of GTPase activity 0 Highly Informative Direct
Biological Process (BP) response to peptide hormone 0.0003084 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 0.00002568 Highly Informative Direct
Biological Process (BP) single-organism behavior 0.0001348 Highly Informative Direct
Biological Process (BP) positive regulation of nucleotide metabolic process 0.0000000000527 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 0.0000000000003926 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 0.0001758 Highly Informative Direct
Biological Process (BP) regulation of fibroblast proliferation 0.00007651 Highly Informative Direct
Biological Process (BP) appendage development 0.00000003261 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.000000007662 Highly Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.000000000001949 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 0.000006231 Highly Informative Direct
Biological Process (BP) regulation of protein import 0.00007604 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.01059 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.003799 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 1 Highly Informative Inherited
Biological Process (BP) plasma membrane bounded cell projection organization 0.7328 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.005375 Highly Informative Inherited
Biological Process (BP) kidney development 0.01745 Highly Informative Inherited
Biological Process (BP) response to growth factor 0.0549 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.01008 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.278 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.1724 Highly Informative Inherited
Biological Process (BP) regulation of protein stability 0.1625 Highly Informative Inherited
Biological Process (BP) negative regulation of growth 0.02861 Highly Informative Inherited
Biological Process (BP) circadian rhythm 0.002151 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.6196 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.001064 Highly Informative Inherited
Biological Process (BP) regulation of cell size 1 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.05634 Highly Informative Inherited
Biological Process (BP) positive regulation of protein transport 1 Highly Informative Inherited
Biological Process (BP) regulation of intracellular protein transport 0.004213 Highly Informative Inherited
Biological Process (BP) positive regulation of intracellular transport 0.9586 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular protein localization 0.008055 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.381 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 0.1742 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.00824 Highly Informative Inherited
Biological Process (BP) regulation of cell division 0.1127 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.8057 Highly Informative Inherited
Biological Process (BP) negative regulation of supramolecular fiber organization 0.5519 Highly Informative Inherited
Biological Process (BP) forebrain development 0.002176 Highly Informative Inherited
Biological Process (BP) second-messenger-mediated signaling 1 Highly Informative Inherited
Biological Process (BP) neuron development 0.003757 Highly Informative Inherited
Biological Process (BP) nervous system process 0.1353 Highly Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.3405 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 0.6375 Highly Informative Inherited
Biological Process (BP) gastrulation 0.2465 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) binding 0.00108 Least Informative Inherited
Molecular Function (MF) anion binding 0.0000003637 Moderately Informative Direct
Molecular Function (MF) molecular function regulator 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.9112 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.9844 Moderately Informative Inherited
Molecular Function (MF) signal transducer activity 0.000867 Informative Direct
Molecular Function (MF) phospholipid binding 0.000000000000003188 Informative Direct
Molecular Function (MF) enzyme activator activity 0 Informative Direct
Molecular Function (MF) enzyme binding 0.0000000000004236 Informative Direct
Molecular Function (MF) phosphatase activity 0.01675 Informative Inherited
Molecular Function (MF) receptor binding 0.2607 Informative Inherited
Molecular Function (MF) macromolecular complex binding 0.07613 Informative Inherited
Molecular Function (MF) molecular transducer activity 0.001415 Informative Inherited
Molecular Function (MF) protein domain specific binding 0.0003196 Highly Informative Direct
Molecular Function (MF) GTPase regulator activity 0 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol phosphate binding 0.000000000002867 Highly Informative Direct
Molecular Function (MF) kinase regulator activity 1 Highly Informative Inherited
Molecular Function (MF) kinase binding 1 Highly Informative Inherited
Molecular Function (MF) transmembrane signaling receptor activity 0.3218 Highly Informative Inherited
Molecular Function (MF) small GTPase binding 0.1915 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.0000002755 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.1234 Least Informative Inherited
Cellular Component (CC) membrane 0.01215 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.00000000004976 Moderately Informative Direct
Cellular Component (CC) cell projection 0.000000000004894 Moderately Informative Direct
Cellular Component (CC) transferase complex 1 Moderately Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.0000002208 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.00009737 Informative Direct
Cellular Component (CC) cytoplasmic region 0 Informative Direct
Cellular Component (CC) neuron projection 0.5615 Informative Inherited
Cellular Component (CC) plasma membrane bounded cell projection part 0.1965 Informative Inherited
Cellular Component (CC) transferase complex, transferring phosphorus-containing groups 0.1614 Informative Inherited
Cellular Component (CC) ruffle 0.000125 Highly Informative Direct
Cellular Component (CC) growth cone 0.000005967 Highly Informative Direct
Cellular Component (CC) cell division site part 0.0000000004048 Highly Informative Direct
Cellular Component (CC) contractile ring 0.00006322 Highly Informative Direct
Cellular Component (CC) cell-cell junction 1 Highly Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0.06777 Highly Informative Inherited
Cellular Component (CC) receptor complex 0.04532 Highly Informative Inherited

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0.00000003394Moderately InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processAngiogenesis0.000000000002274InformativeDirect
Biological processStress response0.0006209InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasm0.001312Least InformativeInherited
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.00000000000001883Moderately InformativeDirect
Cellular componentCytoskeleton0.0000000000172Moderately InformativeDirect
Cellular componentEndosome0.000000002027Moderately InformativeDirect
Cellular componentGolgi apparatus0.000002185Moderately InformativeDirect
Coding sequence diversityAlternative splicing0.000001987Least InformativeDirect
DiseaseTumor suppressor0.00000001324Moderately InformativeDirect
DomainRepeat0.000008634Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0.0000008398Moderately InformativeDirect
DomainSH2 domain0InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding0.00000000000005166InformativeDirect
DomainLIM domain0.00003117Highly InformativeDirect
Molecular functionZinc0.00002339Least InformativeDirect
Post-translational modificationDevelopmental protein0.00000000002007Moderately InformativeDirect
Post-translational modificationReceptor0.00001496Moderately InformativeDirect
Post-translational modificationGTPase activation0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0InformativeDirect
Post-translational modificationCalmodulin-binding0.00000003554InformativeDirect
Post-translational modificationActin-binding0.0004775InformativeDirect
Post-translational modificationMyosin0.0000001228Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR008936 SSF48350 Protein matches
Abstract

Proteins containing a RhoGAP (Rho GTPase Activating Protein) domain usually function to catalyze the hydrolysis of GTP that is bound to Rho, Rac and/or Cdc42, inactivating these regulators of the actin cytoskeleton. The 53 known human RhoGAP domain-containing proteins are the largest known group of Rho GTPase regulators and significantly outnumber the 21 Rho GTPases they presumably regulate. This excess of GAP proteins probably indicates complex regulation of the Rho GTPases and is consistent with the existence of almost as many (48) human Dbl domain-containing Rho GEFs that act antagonistically to the RhoGAP proteins by activating the Rho GTPases. Phylogenetic analysis offers evidence for frequent domain duplication and for duplication of the entire genes containing these GAP domains [PubMed12297274].


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 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 GTPase activation domain, GAP 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 GTPase activation domain, GAP 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 ]