SUPERFAMILY 1.75 HMM library and genome assignments server

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RUN domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   RUN domain-like [ 140740]
Superfamily:   RUN domain-like [ 140741]
Families:   RUN domain [ 140742]


Superfamily statistics
Genomes (172) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,468 2,607 1
Proteins 2,242 2,384 1


Functional annotation
General category Regulation
Detailed category Signal transduction

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) regulation of cellular process 0.6415 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.7727 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.0008126 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.02026 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.3779 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.003676 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.001894 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.482 Moderately Informative Inherited
Biological Process (BP) regulation of purine nucleotide metabolic process 0.000002481 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 0.00008671 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.000129 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.05988 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.008137 Informative Inherited
Biological Process (BP) small GTPase mediated signal transduction 0.000002501 Highly Informative Direct
Biological Process (BP) positive regulation of GTPase activity 0.00002111 Highly Informative Direct
Biological Process (BP) regulation of Ras GTPase activity 0.2846 Highly Informative Inherited
Molecular Function (MF) binding 0.1785 Least Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.000000002263 Moderately Informative Direct
Molecular Function (MF) GTPase regulator activity 0.0000000001298 Informative Direct
Molecular Function (MF) enzyme binding 0.00000076 Informative Direct
Molecular Function (MF) Ras GTPase binding 0.0000000000000162 Highly Informative Direct
Molecular Function (MF) small GTPase regulator activity 0.000000000002381 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.3582 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.4627 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) endosome 0.000003106 Informative Direct
Cellular Component (CC) Golgi apparatus 0.0002892 Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Fly Phenotype (FP)

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

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
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)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentEndosome0.00000000001216Moderately InformativeDirect
Cellular componentGolgi apparatus0.00001836Moderately InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainSH3 domain0.0000000000024InformativeDirect
Molecular functionZinc0.0008132Least InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0000000002794InformativeDirect
Post-translational modificationPhosphoprotein0.000000001626Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Fly Phenotype (FP) · 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 RUN domain-like 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 RUN domain-like 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-coverage) · Worm Phenotype (WP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]