SUPERFAMILY 1.75 HMM library and genome assignments server


RGC domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   RGC domain-like [ 143884]
Superfamily:   RGC domain-like [ 143885]
Families:   RGC domain [ 143886]


Superfamily statistics
Genomes (296) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 641 802 1
Proteins 640 801 1


Functional annotation
General category Regulation
Detailed category RNA binding, metabolism and transport

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) single-organism cellular process 0.04295 Least Informative Inherited
Biological Process (BP) developmental process 0.371 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.5086 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.00261 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.003318 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1932 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.01381 Least Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 3.31e-11 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0005727 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.0006492 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0006602 Moderately Informative Direct
Biological Process (BP) tissue development 0.0009767 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.3487 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.02807 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.4675 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.006558 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.04586 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.006219 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.4659 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.06955 Moderately Informative Inherited
Biological Process (BP) organ development 0.02798 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2202 Moderately Informative Inherited
Biological Process (BP) regulation of anatomical structure size 3.298e-06 Informative Direct
Biological Process (BP) epithelium development 1.877e-05 Informative Direct
Biological Process (BP) regulation of cytokine production 2.136e-05 Informative Direct
Biological Process (BP) regulation of kinase activity 2.919e-05 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 0.0001456 Informative Direct
Biological Process (BP) positive regulation of protein metabolic process 0.0001792 Informative Direct
Biological Process (BP) actin filament-based process 0.0002521 Informative Direct
Biological Process (BP) cell cycle process 0.0005586 Informative Direct
Biological Process (BP) cytoskeleton organization 0.0008135 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.7485 Informative Inherited
Biological Process (BP) epithelial cell development 8.911e-10 Highly Informative Direct
Biological Process (BP) renal system development 7.136e-08 Highly Informative Direct
Biological Process (BP) positive regulation of protein kinase activity 2.043e-06 Highly Informative Direct
Molecular Function (MF) binding 0.000444 Least Informative Direct
Molecular Function (MF) enzyme binding 1.181e-12 Informative Direct
Molecular Function (MF) Ras GTPase binding 0 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.974e-09 Least Informative Direct
Cellular Component (CC) membrane 0.0216 Least Informative Inherited
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.0003123 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.0146 Moderately Informative Inherited
Cellular Component (CC) actin cytoskeleton 0 Informative Direct
Cellular Component (CC) cell junction 0 Informative Direct
Cellular Component (CC) cell leading edge 5.345e-09 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.0001404 Informative Direct
Cellular Component (CC) neuron projection 0.002938 Informative Inherited
Cellular Component (CC) growth cone 1.154e-11 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
DomainRepeat0.0009931Least InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationPhosphoprotein3.195e-06Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · 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 RGC 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 RGC 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) · UniProtKB KeyWords (KW) · Internal database links ]