SUPERFAMILY 1.75 HMM library and genome assignments server


Rap/Ran-GAP superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   Rap/Ran-GAP [ 111346]
Superfamily:   Rap/Ran-GAP [ 111347]
Families:   Rap/Ran-GAP [ 111348]


Superfamily statistics
Genomes (316) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,824 1,758 1
Proteins 1,731 1,702 1


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)
Biological Process (BP)response to stimulus02.006e-08Least InformativeDirect
Biological Process (BP)single-organism cellular process00.0001794Least InformativeDirect
Biological Process (BP)locomotion00.000202InformativeDirect
Biological Process (BP)chemotaxis00.000105Highly 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) response to stimulus 2.006e-08 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0001794 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.0003364 Least Informative Direct
Biological Process (BP) localization 0.07852 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.4726 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.008251 Least Informative Inherited
Biological Process (BP) developmental process 0.1029 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.1482 Least Informative Inherited
Biological Process (BP) regulation of signal transduction 0 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of localization 1.549e-05 Moderately Informative Direct
Biological Process (BP) nervous system development 0.0002606 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0003003 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0006794 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.02791 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.4628 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.3361 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.2425 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.02596 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.00193 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.2281 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.4183 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.7887 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9478 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.01186 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.003388 Moderately Informative Inherited
Biological Process (BP) organ development 0.2076 Moderately Informative Inherited
Biological Process (BP) tissue development 0.006851 Moderately Informative Inherited
Biological Process (BP) locomotion 0.000202 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 0 Informative Direct
Biological Process (BP) regulation of nucleotide catabolic process 0 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 2.063e-10 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 2.461e-10 Informative Direct
Biological Process (BP) cytoplasmic transport 3.609e-07 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 1.614e-06 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 3.507e-06 Informative Direct
Biological Process (BP) tissue morphogenesis 5.534e-06 Informative Direct
Biological Process (BP) embryonic morphogenesis 7.733e-06 Informative Direct
Biological Process (BP) epithelium development 1.109e-05 Informative Direct
Biological Process (BP) intracellular signal transduction 1.448e-05 Informative Direct
Biological Process (BP) regulation of nervous system development 5.611e-05 Informative Direct
Biological Process (BP) regulation of cell cycle 9.568e-05 Informative Direct
Biological Process (BP) cardiovascular system development 0.0001059 Informative Direct
Biological Process (BP) regulation of cell development 0.0001426 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0001911 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.001123 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.002211 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.005381 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 1 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.7152 Informative Inherited
Biological Process (BP) protein localization to organelle 0.002141 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.009644 Informative Inherited
Biological Process (BP) protein transport 0.001645 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.2796 Informative Inherited
Biological Process (BP) chemotaxis 0.000105 Highly Informative Direct
Biological Process (BP) regulation of cellular response to insulin stimulus 0 Highly Informative Direct
Biological Process (BP) positive regulation of GTPase activity 0 Highly Informative Direct
Biological Process (BP) protein targeting to nucleus 3.142e-13 Highly Informative Direct
Biological Process (BP) tube formation 7.355e-13 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 1.872e-12 Highly Informative Direct
Biological Process (BP) protein localization to nucleus 2.822e-12 Highly Informative Direct
Biological Process (BP) neural tube development 1.231e-11 Highly Informative Direct
Biological Process (BP) nuclear import 1.362e-11 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 1.578e-11 Highly Informative Direct
Biological Process (BP) response to hypoxia 7.34e-11 Highly Informative Direct
Biological Process (BP) protein import 2.145e-10 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 7.865e-10 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 6.595e-09 Highly Informative Direct
Biological Process (BP) regulation of Ras GTPase activity 1.237e-08 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 9.82e-07 Highly Informative Direct
Biological Process (BP) multi-organism behavior 9.946e-07 Highly Informative Direct
Biological Process (BP) negative regulation of phosphorylation 1.785e-05 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 3.57e-05 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 0.005856 Highly Informative Inherited
Molecular Function (MF) binding 0.01971 Least Informative Inherited
Molecular Function (MF) enzyme regulator activity 0 Moderately Informative Direct
Molecular Function (MF) enzyme activator activity 0 Informative Direct
Molecular Function (MF) GTPase regulator activity 0 Informative Direct
Molecular Function (MF) protein dimerization activity 0.0001791 Informative Direct
Molecular Function (MF) GTPase activator activity 0 Highly Informative Direct
Molecular Function (MF) small GTPase regulator activity 0.003904 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.1968 Least Informative Inherited
Cellular Component (CC) cytosol 0.003706 Moderately Informative Inherited
Cellular Component (CC) cell projection 0.05862 Moderately Informative Inherited
Cellular Component (CC) neuron projection 0.0007042 Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)tumorigenesis0.002397Moderately InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)intestine0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0Moderately InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
DomainCoiled coil1.396e-13Moderately InformativeDirect
Post-translational modificationGTPase activation0InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · 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 Rap/Ran-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 1 hidden Markov models representing the Rap/Ran-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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]