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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 (3,164) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 12,992 54,503 30
Proteins 12,977 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 process0.0000240.0001284Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.00000000013830Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.00000000024760.000000000002517Least InformativeDirect
Biological Process (BP)primary metabolic process0.000000026150.0000000006489Least InformativeDirect
Biological Process (BP)heterocycle metabolic process0.000025410.00009264Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.0000000000030130.000000000001426Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.00030530.0006671Least InformativeDirect
Biological Process (BP)biosynthetic process0.69770.02522Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)biological regulation0.52591Least InformativeInherited
Biological Process (BP)peptide metabolic process0.000000039280Moderately InformativeDirect
Biological Process (BP)gene expression0.000000000000011910Moderately InformativeDirect
Biological Process (BP)RNA metabolic process0.000000010620.00000002322Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00005380.0000000000006709Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.0031080.0000001583Moderately InformativeInherited
Biological Process (BP)regulation of response to stimulus0.11221Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.014040.3216Moderately InformativeInherited
Biological Process (BP)regulation of molecular function0.0013860.4165Moderately InformativeInherited
Biological Process (BP)regulation of cell communication0.019670.8695Moderately InformativeInherited
Biological Process (BP)regulation of signaling0.033280.874Moderately InformativeInherited
Biological Process (BP)cellular component assembly11Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.027780.9445Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.012330.003939Moderately InformativeInherited
Biological Process (BP)RNA modification0.00000000000059890InformativeDirect
Biological Process (BP)ncRNA processing0.0000098570.000000000006434InformativeDirect
Biological Process (BP)ribonucleoprotein complex subunit organization0.0000000025990.00002976InformativeDirect
Biological Process (BP)positive regulation of phosphate metabolic process0.10980.1399InformativeInherited
Biological Process (BP)positive regulation of cellular protein metabolic process0.00058690.005718InformativeInherited
Biological Process (BP)regulation of intracellular signal transduction0.00080170.3147InformativeInherited
Biological Process (BP)positive regulation of catalytic activity0.040250.0768InformativeInherited
Biological Process (BP)positive regulation of signal transduction0.00071880.1061InformativeInherited
Biological Process (BP)regulation of transferase activity0.00000094550.006297InformativeInherited
Biological Process (BP)regulation of phosphorylation0.000038780.08226InformativeInherited
Biological Process (BP)regulation of protein modification process0.12281InformativeInherited
Biological Process (BP)ribosome biogenesis0.27640.0004416InformativeInherited
Biological Process (BP)rRNA metabolic process0.0000034820.000000000001094Highly InformativeDirect
Biological Process (BP)activation of protein kinase activity0.000000059510.0001473Highly InformativeDirect
Biological Process (BP)regulation of MAP kinase activity0.000000020060.0004058Highly InformativeDirect
Biological Process (BP)positive regulation of protein serine/threonine kinase activity0.000000036670.0002676Highly InformativeDirect
Biological Process (BP)positive regulation of MAPK cascade0.0000016410.004151Highly InformativeInherited
Molecular Function (MF)binding0.0000031260.05646Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.0000000000043570.000000000000006357Moderately InformativeDirect
Molecular Function (MF)RNA binding0.0000021770InformativeDirect
Cellular Component (CC)macromolecular complex00Least InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.0000000000086190.000000001037Least InformativeDirect
Cellular Component (CC)cytoplasmic part10.7477Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.0018560.295Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)ribosome0.000000000027030Moderately InformativeDirect
Cellular Component (CC)cytosolic part00Moderately InformativeDirect
Cellular Component (CC)nuclear part0.026120.3126Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.020380.4528Moderately InformativeInherited
Cellular Component (CC)cytosolic ribosome0.00044370.0000002271InformativeDirect
Cellular Component (CC)small nucleolar ribonucleoprotein complex0.0000000000016080Highly InformativeDirect
Cellular Component (CC)nucleolar part0.00000036180.000000006098Highly 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 0.0001284 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.000000000002517 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000000006489 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00009264 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000000000001426 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0006671 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.02522 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 0.00000002322 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00001631 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0.0000000000006709 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000001583 Moderately Informative Direct
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.3533 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.3216 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.4165 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8695 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.874 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.9445 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.003939 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.9708 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) RNA modification 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0000141 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.00003592 Informative Direct
Biological Process (BP) ncRNA processing 0.000000000006434 Informative Direct
Biological Process (BP) ribosome biogenesis 0.0004416 Informative Direct
Biological Process (BP) organelle assembly 0.0004651 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.00002976 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.1399 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.005718 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.3147 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.0768 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.1061 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.006297 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.08226 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) rRNA metabolic process 0.000000000001094 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.00000001387 Highly Informative Direct
Biological Process (BP) activation of protein kinase activity 0.0001473 Highly Informative Direct
Biological Process (BP) regulation of MAP kinase activity 0.0004058 Highly Informative Direct
Biological Process (BP) positive regulation of protein serine/threonine kinase activity 0.0002676 Highly Informative Direct
Biological Process (BP) positive regulation of MAPK cascade 0.004151 Highly Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) binding 0.05646 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.000000000000006357 Moderately Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.000008838 Informative Direct
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 0.0000004894 Highly Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0.03113 Highly Informative Inherited
Cellular Component (CC) macromolecular complex 0 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.000000001037 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.295 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.7477 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 0.3126 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.4528 Moderately Informative Inherited
Cellular Component (CC) cytosolic ribosome 0.0000002271 Informative Direct
Cellular Component (CC) large ribosomal subunit 0.1842 Informative Inherited
Cellular Component (CC) small nucleolar ribonucleoprotein complex 0 Highly Informative Direct
Cellular Component (CC) nucleolar part 0.000000006098 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

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)hematopoietic system phenotype0.02827Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.03042Least InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte cell number0.001264Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.01683Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.03335Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell physiology0.04475Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.05785Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.07894Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.1062Moderately InformativeInherited
Mammalian Phenotype (MP)increased leukocyte cell number0.00009883InformativeDirect
Mammalian Phenotype (MP)abnormal renal corpuscle morphology0.002518InformativeInherited
Mammalian Phenotype (MP)autoimmune response0.004017InformativeInherited
Mammalian Phenotype (MP)abnormal kidney physiology0.004081InformativeInherited
Mammalian Phenotype (MP)abnormal humoral immune response0.0109InformativeInherited
Mammalian Phenotype (MP)increased anti-nuclear antigen antibody level0.00009875Highly InformativeDirect
Mammalian Phenotype (MP)renal/urinary system inflammation0.0004881Highly InformativeDirect
Mammalian Phenotype (MP)increased IgG level0.0007164Highly InformativeDirect
Mammalian Phenotype (MP)abnormal IgG1 level0.0008323Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.002765Least InformativeInherited
Worm Phenotype (WP)cell development variant0.008504Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.024Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.03114Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.03874Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.08174Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0004739Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.0005574Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.00102Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.004181Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.007456Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.06659Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.07538Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.4033Moderately InformativeInherited
Worm Phenotype (WP)pachytene progression during oogenesis variant0.000002045InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.000002278InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.00001147InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.00001219InformativeDirect
Worm Phenotype (WP)oocyte morphology variant0.0000766InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.0004351InformativeDirect
Worm Phenotype (WP)gonad vesiculated0.0000004788Highly InformativeDirect
Worm Phenotype (WP)pachytene region organization variant0.000001169Highly InformativeDirect
Worm Phenotype (WP)oocyte number decreased0.000002428Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.0003288Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)nervous system0Least InformativeDirect
Fly Anatomy (FA)anatomical group0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)somatic cell0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.03715Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.0007945Moderately InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0Moderately InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0.0001613InformativeDirect
Enzyme Commission (EC)Ribonuclease P0.0000001044Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0.01259Moderately InformativeInherited
Biological processrRNA processing0InformativeDirect
Biological processtRNA processing0.0000000000002543InformativeDirect
Biological processProtein biosynthesis0.000000000002194InformativeDirect
Biological processRibosome biogenesis0.0000000008802InformativeDirect
Biological processmRNA processing0.00000004377InformativeDirect
Biological processGrowth regulation0.0000001447Highly InformativeDirect
Cellular componentCytoplasm3.305e-16Least InformativeDirect
Cellular componentNucleus0.0002771Least InformativeDirect
Cellular componentSpliceosome3.305e-16InformativeDirect
Molecular functionS-adenosyl-L-methionine0InformativeDirect
Post-translational modificationHydrolase0.01386Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRNA-binding0.00000002016Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationMethyltransferase0InformativeDirect

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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]