SUPERFAMILY 1.75 HMM library and genome assignments server


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 (3,170) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 45,921 251,108 3
Proteins 45,651 250,428 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)nitrogen compound metabolic process7.559e-112.766e-10Least InformativeDirect
Biological Process (BP)biosynthetic process04.889e-14Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.0095730.01999Least InformativeInherited
Biological Process (BP)protein metabolic process0.32950.192Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)regulation of cellular process11Least InformativeInherited
Biological Process (BP)multicellular organismal process11Least InformativeInherited
Biological Process (BP)developmental process11Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.0014010.01002Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.00011697.374e-07Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process00Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process2.185e-088.742e-05Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process1.511e-119.111e-07Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process00Moderately InformativeDirect
Biological Process (BP)organic cyclic compound biosynthetic process00Moderately InformativeDirect
Biological Process (BP)organonitrogen compound biosynthetic process3.244e-130Moderately InformativeDirect
Biological Process (BP)single-organism biosynthetic process0.055120.007872Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.079790.08369Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.50381Moderately InformativeInherited
Biological Process (BP)regulation of localization0.093130.4291Moderately InformativeInherited
Biological Process (BP)single-organism developmental process0.62491Moderately InformativeInherited
Biological Process (BP)organ development0.24881Moderately InformativeInherited
Biological Process (BP)phosphate-containing compound metabolic process0.92890.7993Moderately InformativeInherited
Biological Process (BP)organophosphate metabolic process0.38340.04232Moderately InformativeInherited
Biological Process (BP)immune system process0.29051Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.55421Moderately InformativeInherited
Biological Process (BP)regulation of signal transduction0.10021Moderately InformativeInherited
Biological Process (BP)cell differentiation0.33181Moderately InformativeInherited
Biological Process (BP)multi-organism process0.14180.7313Moderately InformativeInherited
Biological Process (BP)cellular lipid metabolic process0.75950.2716Moderately InformativeInherited
Biological Process (BP)lipid biosynthetic process0.90050.3615Moderately InformativeInherited
Biological Process (BP)positive regulation of response to stimulus0.055480.9908Moderately InformativeInherited
Biological Process (BP)regulation of multicellular organismal process0.079121Moderately InformativeInherited
Biological Process (BP)vitamin metabolic process0.00074111.041e-05InformativeDirect
Biological Process (BP)pigment metabolic process7.361e-124.435e-12InformativeDirect
Biological Process (BP)monocarboxylic acid biosynthetic process0.00040069.81e-06InformativeDirect
Biological Process (BP)immune effector process0.00046880.03015InformativeInherited
Biological Process (BP)defense response0.036470.2777InformativeInherited
Biological Process (BP)regulation of secretion0.00017270.04083InformativeInherited
Biological Process (BP)regulation of establishment of protein localization6.415e-050.01202InformativeInherited
Biological Process (BP)positive regulation of signal transduction0.0044620.5522InformativeInherited
Biological Process (BP)leukocyte activation3.366e-050.02513InformativeInherited
Biological Process (BP)hematopoietic or lymphoid organ development0.00012360.1347InformativeInherited
Biological Process (BP)response to other organism0.0023750.06572InformativeInherited
Biological Process (BP)coenzyme biosynthetic process10.9019InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.0017034.764e-06InformativeInherited
Biological Process (BP)fatty acid metabolic process0.021630.0008566InformativeInherited
Biological Process (BP)regulation of immune response0.0050670.2417InformativeInherited
Biological Process (BP)positive regulation of immune system process0.0015220.09805InformativeInherited
Biological Process (BP)positive regulation of multicellular organismal process9.602e-050.09726InformativeInherited
Biological Process (BP)regulation of cytokine production4.698e-050.01809InformativeInherited
Biological Process (BP)regulation of immune effector process6.115e-060.00457InformativeInherited
Biological Process (BP)positive regulation of cytokine production6.758e-070.0003018Highly InformativeDirect
Biological Process (BP)regulation of production of molecular mediator of immune response7.501e-085.274e-06Highly InformativeDirect
Biological Process (BP)positive regulation of leukocyte mediated immunity1.108e-092.08e-06Highly InformativeDirect
Biological Process (BP)regulation of lymphocyte mediated immunity4.662e-083.258e-05Highly InformativeDirect
Biological Process (BP)positive regulation of adaptive immune response1.316e-109.148e-07Highly InformativeDirect
Biological Process (BP)regulation of adaptive immune response based on somatic recombination of immune receptors built from1.441e-082.035e-05Highly InformativeDirect
Biological Process (BP)porphyrin-containing compound biosynthetic process4.639e-080.0002385Highly InformativeDirect
Biological Process (BP)response to virus3.573e-060.0003933Highly InformativeDirect
Biological Process (BP)T cell differentiation3.946e-080.0001811Highly InformativeDirect
Biological Process (BP)regulation of toll-like receptor signaling pathway2.538e-125.415e-09Highly InformativeDirect
Biological Process (BP)molybdopterin cofactor metabolic process8.443e-060Highly InformativeDirect
Biological Process (BP)pigment biosynthetic process7.119e-094.099e-10Highly InformativeDirect
Biological Process (BP)alpha-beta T cell activation4.967e-105.024e-07Highly InformativeDirect
Biological Process (BP)negative regulation of secretion1.007e-074.821e-05Highly InformativeDirect
Biological Process (BP)negative regulation of protein transport1.248e-073.16e-05Highly InformativeDirect
Biological Process (BP)heme metabolic process0.0025930.000372Highly InformativeInherited
Molecular Function (MF)binding0.018861Least InformativeInherited
Molecular Function (MF)oxidoreductase activity1.038e-064.658e-06Moderately InformativeDirect
Molecular Function (MF)ligase activity, forming carbon-nitrogen bonds0.002540.00145InformativeInherited
Molecular Function (MF)oxidoreductase activity, acting on the CH-CH group of donors6.693e-141.761e-14Highly InformativeDirect
Molecular Function (MF)sulfurtransferase activity5.105e-056.84e-05Highly InformativeDirect
Molecular Function (MF)metal cluster binding00Highly InformativeDirect
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)lipid particle1.244e-068.542e-05Highly 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) nitrogen compound metabolic process 2.766e-10 Least Informative Direct
Biological Process (BP) biosynthetic process 4.889e-14 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.01999 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.192 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.01002 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) sulfur compound metabolic process 7.374e-07 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 8.742e-05 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 9.111e-07 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.007872 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.4291 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.03664 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.7993 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.04232 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.01328 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.7313 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.3615 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.08369 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.2716 Moderately Informative Inherited
Biological Process (BP) gene expression 0.2426 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.303 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.9908 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.02659 Moderately Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 2.54e-05 Informative Direct
Biological Process (BP) fatty acid metabolic process 0.0008566 Informative Direct
Biological Process (BP) vitamin metabolic process 1.041e-05 Informative Direct
Biological Process (BP) RNA modification 1.425e-06 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.0002335 Informative Direct
Biological Process (BP) pigment metabolic process 4.435e-12 Informative Direct
Biological Process (BP) regulation of kinase activity 6.236e-07 Informative Direct
Biological Process (BP) sulfur compound biosynthetic process 4.764e-06 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 9.81e-06 Informative Direct
Biological Process (BP) immune effector process 0.03015 Informative Inherited
Biological Process (BP) defense response 0.2777 Informative Inherited
Biological Process (BP) regulation of secretion 0.04083 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.01202 Informative Inherited
Biological Process (BP) RNA processing 0.005802 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.5522 Informative Inherited
Biological Process (BP) leukocyte activation 0.02513 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.1347 Informative Inherited
Biological Process (BP) response to other organism 0.06572 Informative Inherited
Biological Process (BP) coenzyme biosynthetic process 0.9019 Informative Inherited
Biological Process (BP) regulation of immune response 0.2417 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.09805 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.09726 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.01809 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.00457 Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.0003018 Highly Informative Direct
Biological Process (BP) regulation of production of molecular mediator of immune response 5.274e-06 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte mediated immunity 2.08e-06 Highly Informative Direct
Biological Process (BP) regulation of lymphocyte mediated immunity 3.258e-05 Highly Informative Direct
Biological Process (BP) positive regulation of adaptive immune response 9.148e-07 Highly Informative Direct
Biological Process (BP) regulation of adaptive immune response based on somatic recombination of immune receptors built from 2.035e-05 Highly Informative Direct
Biological Process (BP) tRNA modification 9.134e-10 Highly Informative Direct
Biological Process (BP) porphyrin-containing compound biosynthetic process 0.0002385 Highly Informative Direct
Biological Process (BP) response to virus 0.0003933 Highly Informative Direct
Biological Process (BP) T cell differentiation 0.0001811 Highly Informative Direct
Biological Process (BP) regulation of toll-like receptor signaling pathway 5.415e-09 Highly Informative Direct
Biological Process (BP) heme metabolic process 0.000372 Highly Informative Direct
Biological Process (BP) molybdopterin cofactor metabolic process 0 Highly Informative Direct
Biological Process (BP) pigment biosynthetic process 4.099e-10 Highly Informative Direct
Biological Process (BP) alpha-beta T cell activation 5.024e-07 Highly Informative Direct
Biological Process (BP) negative regulation of secretion 4.821e-05 Highly Informative Direct
Biological Process (BP) negative regulation of protein transport 3.16e-05 Highly Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 4.658e-06 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.005282 Moderately Informative Inherited
Molecular Function (MF) isomerase activity 0.008266 Moderately Informative Inherited
Molecular Function (MF) ligase activity, forming carbon-nitrogen bonds 0.00145 Informative Inherited
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 1.761e-14 Highly Informative Direct
Molecular Function (MF) sulfurtransferase activity 6.84e-05 Highly Informative Direct
Molecular Function (MF) intramolecular transferase activity 1.732e-06 Highly Informative Direct
Molecular Function (MF) protein kinase regulator activity 3.073e-11 Highly Informative Direct
Molecular Function (MF) metal cluster binding 0 Highly Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0.6927 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.435 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.01256 Informative Inherited
Cellular Component (CC) lipid particle 8.542e-05 Highly Informative Direct
Cellular Component (CC) transcription elongation factor complex 0 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 acetyltransferase2.909e-12InformativeDirect
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) 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
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)ovary0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)lung0InformativeDirect

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)Lyases0.0356Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups5.283e-08Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase9.378e-10InformativeDirect
Enzyme Commission (EC)Carbon-nitrogen lyases0.006682InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)Intramolecular transferases (mutases)1InformativeInherited
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 fixation0.0001003InformativeDirect
Biological processMolybdenum cofactor biosynthesis0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPlastid1Moderately InformativeInherited
Cellular componentLipid droplet0.000188Highly InformativeDirect
DomainTransit peptide1.029e-11Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding1Least InformativeInherited
Molecular functionIron0Moderately InformativeDirect
Molecular function2Fe-2S0InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Molecular functionIron-sulfur0InformativeDirect
Molecular functionS-adenosyl-L-methionine0InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationLyase7.285e-09Moderately InformativeDirect
Post-translational modificationMethyltransferase1.603e-14InformativeDirect
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 metabolism6.011e-13InformativeDirect
UniPathway (UP)tRNA modification1InformativeInherited
UniPathway (UP)quinone cofactor 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 biosynthesis8.806e-15Highly InformativeDirect
UniPathway (UP)tRNA post-transcriptional modification6.122e-10Highly 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 ]