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Radical SAM enzymes superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   TIM beta/alpha-barrel [ 51350] (33)
Superfamily:   Radical SAM enzymes [ 102114] (3)
Families:   Biotin synthase [ 102115]
  Oxygen-independent coproporphyrinogen III oxidase HemN [ 102118]
  MoCo biosynthesis proteins [ 110388]


Superfamily statistics
Genomes (3,183) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 45,959 277,822 3
Proteins 45,689 275,911 3


Functional annotation
General category Metabolism
Detailed category Other enzymes

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)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)biosynthetic process00Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organonitrogen compound metabolic process0.0000000062540.0000000859Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.00000057860.0000002126Least InformativeDirect
Biological Process (BP)cellular aromatic compound metabolic process0.00061120.0001464Least InformativeDirect
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)single-organism cellular process0.32971Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.011920.01356Least InformativeInherited
Biological Process (BP)biological regulation11Least InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process00Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process00Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process00Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.0000000052690.00000296Moderately InformativeDirect
Biological Process (BP)small molecule biosynthetic process0.012460.009571Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.086360.1368Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.69931Moderately InformativeInherited
Biological Process (BP)regulation of localization0.21870.9631Moderately InformativeInherited
Biological Process (BP)cellular developmental process0.59021Moderately InformativeInherited
Biological Process (BP)immune system process0.42461Moderately InformativeInherited
Biological Process (BP)regulation of signaling0.25711Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.80981Moderately InformativeInherited
Biological Process (BP)regulation of cell communication0.25651Moderately InformativeInherited
Biological Process (BP)system development0.84971Moderately InformativeInherited
Biological Process (BP)response to biotic stimulus0.069570.4777Moderately InformativeInherited
Biological Process (BP)multi-organism process0.83691Moderately InformativeInherited
Biological Process (BP)response to external stimulus0.060720.9976Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.056551Moderately InformativeInherited
Biological Process (BP)cell communication11Moderately InformativeInherited
Biological Process (BP)lipid metabolic process11Moderately InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.0027860.0002713Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.15420.001237Moderately InformativeInherited
Biological Process (BP)regulation of response to stimulus0.54081Moderately InformativeInherited
Biological Process (BP)regulation of multicellular organismal process0.21751Moderately InformativeInherited
Biological Process (BP)tetrapyrrole metabolic process00InformativeDirect
Biological Process (BP)pigment metabolic process0.00000000000003010.0000000000001295InformativeDirect
Biological Process (BP)water-soluble vitamin biosynthetic process0.0000020540.00000002796InformativeDirect
Biological Process (BP)monocarboxylic acid biosynthetic process0.00055290.00002084InformativeDirect
Biological Process (BP)regulation of cytokine production0.00021910.06298InformativeInherited
Biological Process (BP)positive regulation of multicellular organismal process0.016471InformativeInherited
Biological Process (BP)immune effector process0.0020340.06827InformativeInherited
Biological Process (BP)defense response to other organism0.01320.1791InformativeInherited
Biological Process (BP)regulation of establishment of protein localization0.0013610.1478InformativeInherited
Biological Process (BP)negative regulation of transport0.00015870.0221InformativeInherited
Biological Process (BP)regulation of peptide transport0.0015320.1475InformativeInherited
Biological Process (BP)cell activation0.0019230.116InformativeInherited
Biological Process (BP)regulation of defense response0.0042780.196InformativeInherited
Biological Process (BP)positive regulation of signal transduction0.014710.8103InformativeInherited
Biological Process (BP)positive regulation of immune response0.00054440.05717InformativeInherited
Biological Process (BP)cellular response to DNA damage stimulus0.00040430.1275InformativeInherited
Biological Process (BP)response to extracellular stimulus0.16660.4185InformativeInherited
Biological Process (BP)fatty acid metabolic process0.061230.03071InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.0035490.0001233InformativeInherited
Biological Process (BP)coenzyme biosynthetic process0.86240.2264InformativeInherited
Biological Process (BP)regulation of secretion0.0018710.1329InformativeInherited
Biological Process (BP)heme biosynthetic process0.000000000000034190.00000000000002124Highly InformativeDirect
Biological Process (BP)regulation of toll-like receptor signaling pathway0.00000000005120.0000001348Highly InformativeDirect
Biological Process (BP)positive regulation of lymphocyte mediated immunity0.00000000047620.000005667Highly InformativeDirect
Biological Process (BP)positive regulation of adaptive immune response based on somatic recombination of immune receptors b0.0000000014980.000004131Highly InformativeDirect
Biological Process (BP)positive regulation of production of molecular mediator of immune response0.0000000039530.000004235Highly InformativeDirect
Biological Process (BP)regulation of cytokine production involved in immune response0.0000000091090.00001363Highly InformativeDirect
Biological Process (BP)negative regulation of peptide secretion0.00000011530.00002654Highly InformativeDirect
Biological Process (BP)negative regulation of secretion by cell0.00000063740.0001914Highly InformativeDirect
Biological Process (BP)negative regulation of establishment of protein localization0.0000016510.0005161Highly InformativeDirect
Biological Process (BP)response to virus0.0000030440.0003398Highly InformativeDirect
Biological Process (BP)biotin metabolic process0.000050790.000002734Highly InformativeDirect
Biological Process (BP)positive regulation of cytokine production0.000032050.006357Highly InformativeInherited
Biological Process (BP)lymphocyte activation0.00000087250.004173Highly InformativeInherited
Biological Process (BP)leukocyte differentiation0.00000039830.002155Highly InformativeInherited
Biological Process (BP)cellular response to extracellular stimulus0.0063120.1079Highly InformativeInherited
Biological Process (BP)Mo-molybdopterin cofactor metabolic process0.0000000000015050.3322Highly InformativeInherited
Molecular Function (MF)binding0.051671Least InformativeInherited
Molecular Function (MF)transferase activity10.8784Least InformativeInherited
Molecular Function (MF)oxidoreductase activity0.0000092930.0004586Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring sulfur-containing groups0.000000011670InformativeDirect
Molecular Function (MF)ligase activity0.056420.132InformativeInherited
Molecular Function (MF)oxidoreductase activity, acting on the CH-CH group of donors00Highly InformativeDirect
Molecular Function (MF)iron-sulfur cluster binding10Highly InformativeInherited
Molecular Function (MF)sulfurtransferase activity0.0000000000048670.01973Highly InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.8011Least InformativeInherited
Cellular Component (CC)lipid particle0.00000015920.0000008213Highly 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) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0000000859 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.0000002126 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.0001464 Least Informative Direct
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.01356 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.00000296 Moderately Informative Direct
Biological Process (BP) sulfur compound metabolic process 0.0002713 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.009571 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.9631 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) response to biotic stimulus 0.4777 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.9976 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.1368 Moderately Informative Inherited
Biological Process (BP) amide biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.001237 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.4292 Moderately Informative Inherited
Biological Process (BP) gene expression 0.3991 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) tetrapyrrole metabolic process 0 Informative Direct
Biological Process (BP) pigment metabolic process 0.0000000000001295 Informative Direct
Biological Process (BP) water-soluble vitamin biosynthetic process 0.00000002796 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 0.00002084 Informative Direct
Biological Process (BP) sulfur compound biosynthetic process 0.0001233 Informative Direct
Biological Process (BP) RNA modification 0.000000216 Informative Direct
Biological Process (BP) tRNA metabolic process 0.000003513 Informative Direct
Biological Process (BP) ncRNA processing 0.00007273 Informative Direct
Biological Process (BP) regulation of cytokine production 0.06298 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.1727 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.6298 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.9088 Informative Inherited
Biological Process (BP) immune effector process 0.06827 Informative Inherited
Biological Process (BP) defense response to other organism 0.1791 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.1478 Informative Inherited
Biological Process (BP) negative regulation of transport 0.0221 Informative Inherited
Biological Process (BP) regulation of peptide transport 0.1475 Informative Inherited
Biological Process (BP) cell activation 0.116 Informative Inherited
Biological Process (BP) regulation of defense response 0.196 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.8103 Informative Inherited
Biological Process (BP) positive regulation of immune response 0.05717 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 0.1275 Informative Inherited
Biological Process (BP) response to extracellular stimulus 0.4185 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.03071 Informative Inherited
Biological Process (BP) coenzyme biosynthetic process 0.2264 Informative Inherited
Biological Process (BP) regulation of secretion 0.1329 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.7344 Informative Inherited
Biological Process (BP) heme biosynthetic process 0.00000000000002124 Highly Informative Direct
Biological Process (BP) regulation of toll-like receptor signaling pathway 0.0000001348 Highly Informative Direct
Biological Process (BP) positive regulation of lymphocyte mediated immunity 0.000005667 Highly Informative Direct
Biological Process (BP) positive regulation of adaptive immune response based on somatic recombination of immune receptors b 0.000004131 Highly Informative Direct
Biological Process (BP) positive regulation of production of molecular mediator of immune response 0.000004235 Highly Informative Direct
Biological Process (BP) regulation of cytokine production involved in immune response 0.00001363 Highly Informative Direct
Biological Process (BP) negative regulation of peptide secretion 0.00002654 Highly Informative Direct
Biological Process (BP) negative regulation of secretion by cell 0.0001914 Highly Informative Direct
Biological Process (BP) negative regulation of establishment of protein localization 0.0005161 Highly Informative Direct
Biological Process (BP) response to virus 0.0003398 Highly Informative Direct
Biological Process (BP) biotin metabolic process 0.000002734 Highly Informative Direct
Biological Process (BP) tRNA modification 0.0000000003875 Highly Informative Direct
Biological Process (BP) positive regulation of cytokine production 0.006357 Highly Informative Inherited
Biological Process (BP) lymphocyte activation 0.004173 Highly Informative Inherited
Biological Process (BP) leukocyte differentiation 0.002155 Highly Informative Inherited
Biological Process (BP) cellular response to extracellular stimulus 0.1079 Highly Informative Inherited
Biological Process (BP) Mo-molybdopterin cofactor metabolic process 0.3322 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 0.8784 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0.0004586 Moderately Informative Direct
Molecular Function (MF) isomerase activity 0.02778 Moderately Informative Inherited
Molecular Function (MF) molecular function regulator 0.06211 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring sulfur-containing groups 0 Informative Direct
Molecular Function (MF) ligase activity 0.132 Informative Inherited
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 0 Highly Informative Direct
Molecular Function (MF) iron-sulfur cluster binding 0 Highly Informative Direct
Molecular Function (MF) protein kinase regulator activity 0.0000000001218 Highly Informative Direct
Molecular Function (MF) intramolecular transferase activity 0.000007728 Highly Informative Direct
Molecular Function (MF) sulfurtransferase activity 0.01973 Highly Informative Inherited
Cellular Component (CC) macromolecular complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 1 Moderately Informative Inherited
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.02309 Informative Inherited
Cellular Component (CC) lipid particle 0.0000008213 Highly Informative Direct
Cellular Component (CC) transcription elongation factor complex 0.0000000000001028 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)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Methyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups1Moderately InformativeInherited
Enzyme Commission (EC)Acting on the CH-CH group of donors0.4974Moderately InformativeInherited
Enzyme Commission (EC)With other acceptors0InformativeDirect
Enzyme Commission (EC)Sulfurtransferases0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0.000000000002909InformativeDirect
Enzyme Commission (EC)Transferring nitrogenous groups1InformativeInherited
Enzyme Commission (EC)Other oxidoreductases0.009866Highly InformativeInherited

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0Least InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0.9515Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0.006641Moderately InformativeInherited
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0.000000004251InformativeDirect
Enzyme Commission (EC)Carbon-nitrogen lyases0.09162InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)Intramolecular transferases1InformativeInherited
Enzyme Commission (EC)Other carbon-carbon lyases0Highly InformativeDirect
Enzyme Commission (EC)Transferring nitrogenous groups1Highly InformativeInherited
Enzyme Commission (EC)Sulfurtransferases1Highly InformativeInherited
Enzyme Commission (EC)Oxo-acid-lyases1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processrRNA processing0InformativeDirect
Biological processtRNA processing0InformativeDirect
Biological processNitrogen fixation0.000006794InformativeDirect
Biological processMolybdenum cofactor biosynthesis0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPlastid1Moderately InformativeInherited
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding1Least InformativeInherited
Molecular functionIron0Moderately InformativeDirect
Molecular functionIron-sulfur0Moderately InformativeDirect
Molecular function2Fe-2S0InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Molecular functionS-adenosyl-L-methionine0InformativeDirect
Molecular functionCobalt1InformativeInherited
Molecular functionCobalamin0.0001239Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationLyase0.0000000000005771Moderately InformativeDirect
Post-translational modificationMethyltransferase0InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)cofactor metabolism0Least InformativeDirect
UniPathway (UP)amino-acid metabolism1Least InformativeInherited
UniPathway (UP)aromatic compound metabolism1Least InformativeInherited
UniPathway (UP)amino-acid degradation1Moderately InformativeInherited
UniPathway (UP)purine metabolism1Moderately InformativeInherited
UniPathway (UP)protein maturation0InformativeDirect
UniPathway (UP)purine base metabolism0.0000000000008524InformativeDirect
UniPathway (UP)tRNA modification1InformativeInherited
UniPathway (UP)quinol/quinone biosynthesis1InformativeInherited
UniPathway (UP)biotin biosynthesis0Highly InformativeDirect
UniPathway (UP)molybdopterin biosynthesis0Highly InformativeDirect
UniPathway (UP)protein lipoylation0Highly InformativeDirect
UniPathway (UP)pyrroloquinoline quinone biosynthesis0Highly InformativeDirect
UniPathway (UP)purine base biosynthesis0.000000000000009864Highly InformativeDirect
UniPathway (UP)tRNA post-transcriptional modification0.0000000006387Highly InformativeDirect
UniPathway (UP)Fe-Mo cofactor biosynthesis0.00000001354Highly InformativeDirect

Document: UP 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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 3 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 Radical SAM enzymes 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 3 hidden Markov models representing the Radical SAM enzymes 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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]