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 (281) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 643 556 1
Proteins 642 555 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) regulation of cellular process 8.674e-05 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.0004274 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.001873 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.1781 Least Informative Inherited
Biological Process (BP) developmental process 0.1119 Least Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 1.204e-13 Moderately Informative Direct
Biological Process (BP) tissue development 8.109e-05 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0001749 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0002558 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.003149 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.5681 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.00718 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.02192 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.005864 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.4504 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1043 Moderately Informative Inherited
Biological Process (BP) organ development 0.003347 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.323 Moderately Informative Inherited
Biological Process (BP) epithelium development 1.245e-06 Informative Direct
Biological Process (BP) regulation of kinase activity 4.292e-06 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 1.978e-05 Informative Direct
Biological Process (BP) regulation of cytokine production 2.143e-05 Informative Direct
Biological Process (BP) positive regulation of protein metabolic process 2.338e-05 Informative Direct
Biological Process (BP) cell cycle process 0.0004406 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.7334 Informative Inherited
Biological Process (BP) epithelial cell development 4.297e-11 Highly Informative Direct
Biological Process (BP) renal system development 2.654e-08 Highly Informative Direct
Biological Process (BP) positive regulation of protein kinase activity 2.973e-07 Highly Informative Direct
Molecular Function (MF) binding 1.151e-06 Least Informative Direct
Molecular Function (MF) enzyme binding 1.412e-10 Informative Direct
Molecular Function (MF) Ras GTPase binding 0 Highly Informative Direct
Cellular Component (CC) membrane 0.0005271 Least Informative Direct
Cellular Component (CC) cell projection 6.822e-09 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 1.273e-06 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 9.525e-06 Moderately Informative Direct
Cellular Component (CC) cell-cell junction 0 Informative Direct
Cellular Component (CC) cell leading edge 3.65e-09 Informative Direct
Cellular Component (CC) lateral plasma membrane 0 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
DomainRepeat0.0009976Least InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationPhosphoprotein3.095e-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 ]