SUPERFAMILY 1.75 HMM library and genome assignments server

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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 (514) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 15,816 48,099 10
Proteins 15,662 47,808 10


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)hematopoietic system disease0.3635Moderately InformativeInherited
Disease Ontology (DO)bone marrow disease0.000616Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Somatic mutation0.0005894InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.1001Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.02935Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.1361Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cerebral hemisphere morphology0.0009645InformativeDirect
Mammalian Phenotype (MP)abnormal metencephalon morphology0.879InformativeInherited
Mammalian Phenotype (MP)ectopic cerebellar granule cells0.000002067Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.000000001026Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.000000003109Least InformativeDirect
Worm Phenotype (WP)cell development variant0.00000185Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.004686Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.1879Least InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.000005731Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.000109Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.03455Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.6353Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant1Moderately InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.0002516InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.001642InformativeInherited
Worm Phenotype (WP)neuronal outgrowth variant0.008597InformativeInherited
Worm Phenotype (WP)mitochondria morphology variant0.06391InformativeInherited
Worm Phenotype (WP)axon morphology variant0.000000000002544Highly InformativeDirect
Worm Phenotype (WP)mitochondria alignment variant0.00001144Highly InformativeDirect
Worm Phenotype (WP)cleavage furrow defective0.00007973Highly InformativeDirect
Worm Phenotype (WP)cytokinesis defective early emb0.004738Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)cell0.3504Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.4708Least InformativeInherited
Zebrafish Anatomy (ZA)electrically active cell0.2498Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.7451Moderately InformativeInherited
Zebrafish Anatomy (ZA)electrically signaling cell0.0692InformativeInherited
Zebrafish Anatomy (ZA)electrically responsive cell1InformativeInherited
Zebrafish Anatomy (ZA)primary motor neuron0.0001746Highly InformativeDirect

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

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.002799Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups0.0286Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.000000001301Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.00001353Moderately InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.000003769InformativeDirect

Document: EC 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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]