SUPERFAMILY 1.75 HMM library and genome assignments server

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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 0.03242 Least Informative Inherited
Biological Process (BP) developmental process 0.3397 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.4716 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.002529 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.002252 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1666 Least Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.00000000002094 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.0005091 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0005352 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0006306 Moderately Informative Direct
Biological Process (BP) tissue development 0.0008074 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.02412 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.6896 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.006976 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.04985 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.006193 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.4601 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.06615 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.3294 Moderately Informative Inherited
Biological Process (BP) organ development 0.02412 Moderately Informative Inherited
Biological Process (BP) epithelium development 0.00001501 Informative Direct
Biological Process (BP) regulation of cytokine production 0.00002197 Informative Direct
Biological Process (BP) regulation of kinase activity 0.00002432 Informative Direct
Biological Process (BP) positive regulation of protein modification process 0.00003424 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 0.0001192 Informative Direct
Biological Process (BP) cell cycle process 0.0005622 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.7359 Informative Inherited
Biological Process (BP) epithelial cell development 0.0000000006792 Highly Informative Direct
Biological Process (BP) renal system development 0.00000005994 Highly Informative Direct
Biological Process (BP) positive regulation of protein kinase activity 0.000001718 Highly Informative Direct
Molecular Function (MF) binding 0.0008493 Least Informative Direct
Molecular Function (MF) enzyme binding 0.000000000009961 Informative Direct
Molecular Function (MF) Ras GTPase binding 0 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.000000002032 Least Informative Direct
Cellular Component (CC) membrane 0.02085 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 0.0003249 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.01427 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 0.0000001121 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.0001476 Informative Direct
Cellular Component (CC) neuron projection 0.001043 Informative Inherited
Cellular Component (CC) growth cone 0.00000000001245 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
DomainRepeat0.0009858Least InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationPhosphoprotein0.000003151Least 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 ]