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 (3,176) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 45,904 251,108 3
Proteins 45,635 250,428 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 process2.993e-111.674e-10Least InformativeDirect
Biological Process (BP)biosynthetic process07.347e-15Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)protein metabolic process0.4110.2341Least 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 process0.0014510.01249Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.012540.0436Least InformativeInherited
Biological Process (BP)sulfur compound metabolic process4.8e-053.09e-07Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process00Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process2.072e-080.0001407Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process3.045e-126.264e-07Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process00Moderately InformativeDirect
Biological Process (BP)organic cyclic compound biosynthetic process00Moderately InformativeDirect
Biological Process (BP)organonitrogen compound biosynthetic process5.939e-140Moderately InformativeDirect
Biological Process (BP)single-organism biosynthetic process0.0440.005003Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.5981Moderately InformativeInherited
Biological Process (BP)regulation of localization0.13130.4984Moderately InformativeInherited
Biological Process (BP)organ development0.31661Moderately InformativeInherited
Biological Process (BP)phosphate-containing compound metabolic process0.92690.799Moderately InformativeInherited
Biological Process (BP)organophosphate metabolic process0.46290.05274Moderately InformativeInherited
Biological Process (BP)immune system process0.32431Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.65991Moderately InformativeInherited
Biological Process (BP)regulation of signal transduction0.13951Moderately InformativeInherited
Biological Process (BP)cell differentiation0.40391Moderately InformativeInherited
Biological Process (BP)multi-organism process0.20770.8225Moderately InformativeInherited
Biological Process (BP)lipid metabolic process0.79870.4579Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.051390.05814Moderately InformativeInherited
Biological Process (BP)positive regulation of response to stimulus0.080541Moderately InformativeInherited
Biological Process (BP)regulation of multicellular organismal process0.11411Moderately InformativeInherited
Biological Process (BP)vitamin metabolic process0.0001581.76e-06InformativeDirect
Biological Process (BP)pigment metabolic process9.885e-122.26e-12InformativeDirect
Biological Process (BP)sulfur compound biosynthetic process0.00086172.394e-06InformativeDirect
Biological Process (BP)monocarboxylic acid biosynthetic process0.00016493.873e-06InformativeDirect
Biological Process (BP)immune effector process0.00064730.03331InformativeInherited
Biological Process (BP)defense response0.052820.3204InformativeInherited
Biological Process (BP)negative regulation of transport3.532e-050.005228InformativeInherited
Biological Process (BP)regulation of secretion0.00039080.05445InformativeInherited
Biological Process (BP)regulation of protein localization0.00043970.04467InformativeInherited
Biological Process (BP)leukocyte activation4.75e-050.02875InformativeInherited
Biological Process (BP)hematopoietic or lymphoid organ development0.00018630.1512InformativeInherited
Biological Process (BP)positive regulation of signal transduction0.0073940.6065InformativeInherited
Biological Process (BP)coenzyme biosynthetic process10.9043InformativeInherited
Biological Process (BP)fatty acid metabolic process0.041190.002015InformativeInherited
Biological Process (BP)regulation of immune response0.007920.276InformativeInherited
Biological Process (BP)positive regulation of immune system process0.0022190.111InformativeInherited
Biological Process (BP)positive regulation of multicellular organismal process0.00015530.1086InformativeInherited
Biological Process (BP)regulation of cytokine production6.93e-050.02139InformativeInherited
Biological Process (BP)regulation of immune effector process9.969e-060.005505InformativeInherited
Biological Process (BP)positive regulation of cytokine production1.022e-060.0003398Highly InformativeDirect
Biological Process (BP)regulation of production of molecular mediator of immune response1.085e-077.282e-06Highly InformativeDirect
Biological Process (BP)positive regulation of lymphocyte mediated immunity1.607e-092.226e-06Highly InformativeDirect
Biological Process (BP)positive regulation of adaptive immune response1.917e-101.09e-06Highly InformativeDirect
Biological Process (BP)regulation of adaptive immune response based on somatic recombination of immune receptors built from2.535e-082.685e-05Highly InformativeDirect
Biological Process (BP)porphyrin-containing compound biosynthetic process5.769e-098.486e-05Highly InformativeDirect
Biological Process (BP)response to virus1.902e-060.0003088Highly InformativeDirect
Biological Process (BP)T cell differentiation5.707e-080.0002225Highly InformativeDirect
Biological Process (BP)regulation of toll-like receptor signaling pathway3.712e-126.141e-09Highly InformativeDirect
Biological Process (BP)molybdopterin cofactor metabolic process1.101e-050Highly InformativeDirect
Biological Process (BP)pigment biosynthetic process9.124e-096.392e-10Highly InformativeDirect
Biological Process (BP)alpha-beta T cell activation7.215e-107.7e-07Highly InformativeDirect
Biological Process (BP)negative regulation of secretion1.564e-076.198e-05Highly InformativeDirect
Biological Process (BP)negative regulation of protein transport2.063e-074.001e-05Highly InformativeDirect
Biological Process (BP)heme metabolic process0.003870.000561Highly InformativeInherited
Molecular Function (MF)binding0.037541Least InformativeInherited
Molecular Function (MF)transferase activity0.32690.03384Least InformativeInherited
Molecular Function (MF)oxidoreductase activity1.992e-066.855e-05Moderately InformativeDirect
Molecular Function (MF)ligase activity0.026620.02323InformativeInherited
Molecular Function (MF)oxidoreductase activity, acting on the CH-CH group of donors4.819e-141.562e-15Highly InformativeDirect
Molecular Function (MF)sulfurtransferase activity2.406e-053.343e-05Highly InformativeDirect
Molecular Function (MF)metal cluster binding00Highly InformativeDirect
Cellular Component (CC)cytoplasmic part11Least InformativeInherited

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 1.674e-10 Least Informative Direct
Biological Process (BP) biosynthetic process 7.347e-15 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) regulation of cellular process 1 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) protein metabolic process 0.2341 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.01249 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.0436 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 3.09e-07 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0001407 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 6.264e-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) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.4984 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.2058 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.1121 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.799 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.05274 Moderately Informative Inherited
Biological Process (BP) immune system process 1 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 0.8225 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.4579 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.005003 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.05814 Moderately Informative Inherited
Biological Process (BP) gene expression 0.2784 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.3388 Moderately Informative Inherited
Biological Process (BP) positive 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 0.1772 Moderately Informative Inherited
Biological Process (BP) vitamin metabolic process 1.76e-06 Informative Direct
Biological Process (BP) RNA modification 1.934e-06 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.0003213 Informative Direct
Biological Process (BP) pigment metabolic process 2.26e-12 Informative Direct
Biological Process (BP) regulation of kinase activity 7.081e-05 Informative Direct
Biological Process (BP) sulfur compound biosynthetic process 2.394e-06 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 3.873e-06 Informative Direct
Biological Process (BP) immune effector process 0.03331 Informative Inherited
Biological Process (BP) defense response 0.3204 Informative Inherited
Biological Process (BP) negative regulation of transport 0.005228 Informative Inherited
Biological Process (BP) regulation of secretion 0.05445 Informative Inherited
Biological Process (BP) regulation of protein localization 0.04467 Informative Inherited
Biological Process (BP) leukocyte activation 0.02875 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.1512 Informative Inherited
Biological Process (BP) RNA processing 0.007391 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.6065 Informative Inherited
Biological Process (BP) coenzyme biosynthetic process 0.9043 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.002015 Informative Inherited
Biological Process (BP) amide biosynthetic process 0.1256 Informative Inherited
Biological Process (BP) regulation of immune response 0.276 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.111 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.1086 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.02139 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.005505 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.001347 Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.0003398 Highly Informative Direct
Biological Process (BP) regulation of production of molecular mediator of immune response 7.282e-06 Highly Informative Direct
Biological Process (BP) positive regulation of lymphocyte mediated immunity 2.226e-06 Highly Informative Direct
Biological Process (BP) positive regulation of adaptive immune response 1.09e-06 Highly Informative Direct
Biological Process (BP) regulation of adaptive immune response based on somatic recombination of immune receptors built from 2.685e-05 Highly Informative Direct
Biological Process (BP) tRNA modification 1.132e-09 Highly Informative Direct
Biological Process (BP) porphyrin-containing compound biosynthetic process 8.486e-05 Highly Informative Direct
Biological Process (BP) response to virus 0.0003088 Highly Informative Direct
Biological Process (BP) T cell differentiation 0.0002225 Highly Informative Direct
Biological Process (BP) regulation of toll-like receptor signaling pathway 6.141e-09 Highly Informative Direct
Biological Process (BP) heme metabolic process 0.000561 Highly Informative Direct
Biological Process (BP) molybdopterin cofactor metabolic process 0 Highly Informative Direct
Biological Process (BP) pigment biosynthetic process 6.392e-10 Highly Informative Direct
Biological Process (BP) alpha-beta T cell activation 7.7e-07 Highly Informative Direct
Biological Process (BP) negative regulation of secretion 6.198e-05 Highly Informative Direct
Biological Process (BP) negative regulation of protein transport 4.001e-05 Highly Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 0.03384 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 6.855e-05 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.006623 Moderately Informative Inherited
Molecular Function (MF) isomerase activity 0.008184 Moderately Informative Inherited
Molecular Function (MF) ligase activity 0.02323 Informative Inherited
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 1.562e-15 Highly Informative Direct
Molecular Function (MF) sulfurtransferase activity 3.343e-05 Highly Informative Direct
Molecular Function (MF) intramolecular transferase activity 2.356e-06 Highly Informative Direct
Molecular Function (MF) protein kinase regulator activity 3.883e-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 0.824 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.5706 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.01442 Informative Inherited

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)Lyases0.04647Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups1.397e-07Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase1.005e-09InformativeDirect
Enzyme Commission (EC)Carbon-nitrogen lyases0.006851InformativeInherited
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 fixation9.858e-05InformativeDirect
Biological processMolybdenum cofactor biosynthesis0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPlastid1Moderately InformativeInherited
Cellular componentLipid droplet0.0001859Highly InformativeDirect
DomainTransit peptide1.127e-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 modificationLyase7.103e-09Moderately InformativeDirect
Post-translational modificationMethyltransferase1.562e-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 metabolism5.905e-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 biosynthesis8.821e-15Highly InformativeDirect
UniPathway (UP)tRNA post-transcriptional modification6.098e-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 ]