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L30e-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Bacillus chorismate mutase-like [ 55297] (9)
Superfamily:   L30e-like [ 55315] (3)
Families:   L30e/L7ae ribosomal proteins [ 55316] (4)
  RNA 2'-O ribose methyltransferase substrate binding domain [ 75480] (2)
  ERF1/Dom34 C-terminal domain-like [ 55323] (3)


Superfamily statistics
Genomes (3,166) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 13,117 54,503 30
Proteins 13,102 54,456 30


Functional annotation
General category Information
Detailed category Translation

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)cellular aromatic compound metabolic process0.000021820.0001151Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.0000000001230Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.00000000031480.000000000003134Least InformativeDirect
Biological Process (BP)primary metabolic process0.000000017790.0000000004405Least InformativeDirect
Biological Process (BP)heterocycle metabolic process0.000023240.00008402Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.0000000000028470.00000000000239Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.00029360.0006381Least InformativeDirect
Biological Process (BP)biological regulation0.52021Least InformativeInherited
Biological Process (BP)biosynthetic process0.68860.02509Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)peptide metabolic process0.000000031620Moderately InformativeDirect
Biological Process (BP)gene expression0.000000000000016390Moderately InformativeDirect
Biological Process (BP)RNA metabolic process0.0000000089410.00000002134Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.000049690.00000000000069Moderately InformativeDirect
Biological Process (BP)regulation of molecular function0.0012680.4101Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.011230.001519Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.014610.2203Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0035540.0000001903Moderately InformativeInherited
Biological Process (BP)regulation of signaling0.031280.881Moderately InformativeInherited
Biological Process (BP)regulation of response to stimulus0.10821Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.026770.8505Moderately InformativeInherited
Biological Process (BP)regulation of cell communication0.018520.8768Moderately InformativeInherited
Biological Process (BP)cellular component assembly11Moderately InformativeInherited
Biological Process (BP)RNA modification0.00000000000041450InformativeDirect
Biological Process (BP)ncRNA processing0.00001060.000000000004316InformativeDirect
Biological Process (BP)ribonucleoprotein complex subunit organization0.000000002260.00002443InformativeDirect
Biological Process (BP)regulation of phosphorylation0.00003710.08588InformativeInherited
Biological Process (BP)positive regulation of cellular protein metabolic process0.00060120.002574InformativeInherited
Biological Process (BP)regulation of protein modification process0.13781InformativeInherited
Biological Process (BP)positive regulation of phosphate metabolic process0.10510.1384InformativeInherited
Biological Process (BP)regulation of intracellular signal transduction0.00070410.3094InformativeInherited
Biological Process (BP)positive regulation of signal transduction0.00061550.1038InformativeInherited
Biological Process (BP)positive regulation of catalytic activity0.040070.07549InformativeInherited
Biological Process (BP)regulation of transferase activity0.00000083670.006219InformativeInherited
Biological Process (BP)ribosome biogenesis0.28330.0003657InformativeInherited
Biological Process (BP)rRNA metabolic process0.0000036490.0000000000009925Highly InformativeDirect
Biological Process (BP)activation of protein kinase activity0.000000047490.0001356Highly InformativeDirect
Biological Process (BP)regulation of MAP kinase activity0.000000016880.0003807Highly InformativeDirect
Biological Process (BP)positive regulation of protein serine/threonine kinase activity0.000000028960.000243Highly InformativeDirect
Biological Process (BP)positive regulation of MAPK cascade0.000001390.003862Highly InformativeInherited
Molecular Function (MF)binding0.0000060790.07751Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.0000000000033760.000000000000006264Moderately InformativeDirect
Molecular Function (MF)RNA binding0.0000017630InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.000000000011450.000000001157Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.0016910.2889Least InformativeInherited
Cellular Component (CC)cytoplasmic part10.7079Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)ribosome0.000000000019840Moderately InformativeDirect
Cellular Component (CC)cytosolic part00Moderately InformativeDirect
Cellular Component (CC)nuclear part0.029090.3235Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.020770.4577Moderately InformativeInherited
Cellular Component (CC)cytosolic ribosome0.00045120.0000002146InformativeDirect
Cellular Component (CC)small nucleolar ribonucleoprotein complex0.0000000000039020Highly InformativeDirect
Cellular Component (CC)nucleolar part0.0000003540.00000000553Highly 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) cellular aromatic compound metabolic process 0.0001151 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.000000000003134 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000000004405 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00008402 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00000000000239 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0006381 Least Informative Direct
Biological Process (BP) biosynthetic process 0.02509 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.00000002134 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000175 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0.00000000000069 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000001903 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 0.4101 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.3361 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.001519 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.9375 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.984 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.8505 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.881 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8768 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.2203 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.9778 Moderately Informative Inherited
Biological Process (BP) RNA modification 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.000001753 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.000004471 Informative Direct
Biological Process (BP) ncRNA processing 0.000000000004316 Informative Direct
Biological Process (BP) ribosome biogenesis 0.0003657 Informative Direct
Biological Process (BP) organelle assembly 0.000534 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.00002443 Informative Direct
Biological Process (BP) regulation of phosphorylation 0.08588 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.002574 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.6065 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.5159 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.7325 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.1384 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.3094 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.1038 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.07549 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.006219 Informative Inherited
Biological Process (BP) rRNA metabolic process 0.0000000000009925 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.00000002279 Highly Informative Direct
Biological Process (BP) activation of protein kinase activity 0.0001356 Highly Informative Direct
Biological Process (BP) regulation of MAP kinase activity 0.0003807 Highly Informative Direct
Biological Process (BP) positive regulation of protein serine/threonine kinase activity 0.000243 Highly Informative Direct
Biological Process (BP) positive regulation of MAPK cascade 0.003862 Highly Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) binding 0.07751 Least Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.000000000000006264 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.2513 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) nuclease activity 0.0007748 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.000007802 Informative Direct
Molecular Function (MF) endoribonuclease activity 0.0000006414 Highly Informative Direct
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 0.0000004257 Highly Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0.03203 Highly Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.000000001157 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.2889 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.7079 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.3235 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.4577 Moderately Informative Inherited
Cellular Component (CC) cytosolic ribosome 0.0000002146 Informative Direct
Cellular Component (CC) large ribosomal subunit 0.1817 Informative Inherited
Cellular Component (CC) small nucleolar ribonucleoprotein complex 0 Highly Informative Direct
Cellular Component (CC) nucleolar part 0.00000000553 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0Least InformativeDirect
Enzyme Commission (EC)Methyltransferases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0.01271Moderately InformativeInherited
Biological processrRNA processing0InformativeDirect
Biological processtRNA processing0.0000000000002277InformativeDirect
Biological processProtein biosynthesis0.000000000001936InformativeDirect
Biological processRibosome biogenesis0.0000000009122InformativeDirect
Biological processmRNA processing0.00000004349InformativeDirect
Biological processGrowth regulation0.0000001478Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentNucleus0.0002951Least InformativeDirect
Cellular componentSpliceosome3.314e-16InformativeDirect
Molecular functionS-adenosyl-L-methionine0InformativeDirect
Post-translational modificationHydrolase0.01343Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationRNA-binding0.00000001828Moderately InformativeDirect
Post-translational modificationMethyltransferase0InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationIsopeptide bond0.000004411Moderately InformativeDirect
Post-translational modificationUbl conjugation0.0005422Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 18 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 L30e-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 18 hidden Markov models representing the L30e-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-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]