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FMN-linked oxidoreductases 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:   FMN-linked oxidoreductases [ 51395]
Families:   FMN-linked oxidoreductases [ 51396] (18)


Superfamily statistics
Genomes (3,178) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 28,429 154,584 53
Proteins 28,233 154,171 53


Functional annotation
General category General
Detailed category Protein interaction

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)primary metabolic process0.97491Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0027290.01018Least InformativeInherited
Biological Process (BP)biosynthetic process0.0033760.0004663Least InformativeInherited
Biological Process (BP)biological regulation11Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.0057350Least InformativeInherited
Biological Process (BP)single-organism cellular process0.41470.08242Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process10.8043Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.0023980.01353Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.10040.1613Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.033790.06889Least InformativeInherited
Biological Process (BP)macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.047410.13Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.000020330.00259Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative metabolic process0.10960.009548Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.057260.2498Moderately InformativeInherited
Biological Process (BP)multi-organism process0.10591Moderately InformativeInherited
Biological Process (BP)gene expression0.10080.7439Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process10.5542Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.0037250.2357Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.60291Moderately InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.46320.9742Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.017020.4851Moderately InformativeInherited
Biological Process (BP)tRNA metabolic process0.0000017820.000007319InformativeDirect
Biological Process (BP)nucleotide biosynthetic process0.00045820.0007094InformativeDirect
Biological Process (BP)RNA modification0.0000035040.000000471InformativeDirect
Biological Process (BP)ncRNA processing0.000027270.0001054InformativeDirect
Biological Process (BP)cellular metabolic compound salvage0.00043620.000004104InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.00017030.0005615InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process00InformativeDirect
Biological Process (BP)interspecies interaction between organisms0.064270.08816InformativeInherited
Biological Process (BP)monocarboxylic acid biosynthetic process0.19480.9961InformativeInherited
Biological Process (BP)tRNA modification0.000000036660.000000001279Highly InformativeDirect
Biological Process (BP)nucleobase metabolic process0.00000000036570Highly InformativeDirect
Biological Process (BP)pyrimidine ribonucleotide metabolic process0.0000000011370.00000000004114Highly InformativeDirect
Biological Process (BP)hydrogen peroxide metabolic process0.0000011860.000000357Highly InformativeDirect
Biological Process (BP)modification of morphology or physiology of other organism involved in symbiotic interaction0.0000043080.00005993Highly InformativeDirect
Biological Process (BP)viral process0.0000020860.009779Highly InformativeInherited
Biological Process (BP)pyrimidine nucleotide biosynthetic process0.0014050.0008731Highly InformativeInherited
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)transferase activity11Least InformativeInherited
Molecular Function (MF)oxidoreductase activity00Moderately InformativeDirect
Molecular Function (MF)anion binding0.0110.01946Moderately InformativeInherited
Molecular Function (MF)carbohydrate derivative binding0.00031720.001782Moderately InformativeInherited
Molecular Function (MF)small molecule binding0.0088410.001662Moderately InformativeInherited
Molecular Function (MF)ribonucleotide binding0.000024960.01255InformativeInherited
Molecular Function (MF)transferase activity, transferring alkyl or aryl (other than methyl) groups0.0013580.001774InformativeInherited
Molecular Function (MF)prenyltransferase activity0.00005560.000004812Highly InformativeDirect
Molecular Function (MF)FMN binding00Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on the CH-CH group of donors00Highly InformativeDirect
Cellular Component (CC)intracellular organelle part0.8151Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.026650.2181Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.17491Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.094211Moderately InformativeInherited
Cellular Component (CC)microbody0.0000000000000013480.00000000000001869InformativeDirect
Cellular Component (CC)peroxisomal part0.067480.1172Highly 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) biosynthetic process 0.0004663 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.8043 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.08242 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.01353 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.01018 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1613 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.06889 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.0008162 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.004307 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.13 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.00259 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.002468 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.2498 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.009548 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.01631 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.01029 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 0.7439 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.2357 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.5542 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.4851 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.9742 Moderately Informative Inherited
Biological Process (BP) tRNA metabolic process 0.000007319 Informative Direct
Biological Process (BP) glutamine family amino acid metabolic process 0.00000002843 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0.0007094 Informative Direct
Biological Process (BP) RNA modification 0.000000471 Informative Direct
Biological Process (BP) ncRNA processing 0.0001054 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.000004104 Informative Direct
Biological Process (BP) dicarboxylic acid metabolic process 0.000001034 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.0005615 Informative Direct
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.0006824 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0002783 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.0000677 Informative Direct
Biological Process (BP) interspecies interaction between organisms 0.08816 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.02139 Informative Inherited
Biological Process (BP) monocarboxylic acid biosynthetic process 0.9961 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.06549 Informative Inherited
Biological Process (BP) lipid catabolic process 0.003335 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.3719 Informative Inherited
Biological Process (BP) pyrimidine nucleotide biosynthetic process 0.0008731 Highly Informative Direct
Biological Process (BP) tRNA modification 0.000000001279 Highly Informative Direct
Biological Process (BP) glutamate metabolic process 0.000000007373 Highly Informative Direct
Biological Process (BP) fatty acid catabolic process 0.0002936 Highly Informative Direct
Biological Process (BP) nucleobase metabolic process 0 Highly Informative Direct
Biological Process (BP) nucleoside catabolic process 0.000000000103 Highly Informative Direct
Biological Process (BP) pyrimidine ribonucleotide metabolic process 0.00000000004114 Highly Informative Direct
Biological Process (BP) hydrogen peroxide metabolic process 0.000000357 Highly Informative Direct
Biological Process (BP) dicarboxylic acid biosynthetic process 0.0000000000002271 Highly Informative Direct
Biological Process (BP) modification of morphology or physiology of other organism involved in symbiotic interaction 0.00005993 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 0.000000000002208 Highly Informative Direct
Biological Process (BP) viral process 0.009779 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) anion binding 0.01946 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 0.001782 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.001662 Moderately Informative Inherited
Molecular Function (MF) ribonucleotide binding 0.01255 Informative Inherited
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.001774 Informative Inherited
Molecular Function (MF) prenyltransferase activity 0.000004812 Highly Informative Direct
Molecular Function (MF) FMN binding 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-NH2 group of donors 0.0000001449 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.2181 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 1 Moderately Informative Inherited
Cellular Component (CC) microbody 0.00000000000001869 Informative Direct
Cellular Component (CC) plastid 0.03112 Informative Inherited
Cellular Component (CC) peroxisomal part 0.1172 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Isomerases0Least InformativeDirect
Enzyme Commission (EC)Acting on the CH-CH group of donors0Moderately InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)Acting on NADH or NADPH1Moderately InformativeInherited
Enzyme Commission (EC)Transposing C==C bonds0InformativeDirect
Enzyme Commission (EC)With other acceptors0.0000000000001427InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.00008571InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With a cytochrome as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With oxygen as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Glutamate synthase (NADH)0.0000001803Highly InformativeDirect
Enzyme Commission (EC)Dihydropyrimidine dehydrogenase (NADP(+))0.0000008676Highly InformativeDirect
Enzyme Commission (EC)Glutamate synthase (NADPH)0.00000537Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0Moderately InformativeDirect
Biological processAmino-acid biosynthesis1Moderately InformativeInherited
Biological processtRNA processing0InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processDetoxification0Highly InformativeDirect
Biological processPhospholipid metabolism0Highly InformativeDirect
Biological processPyrimidine biosynthesis0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentPeroxisome0.000000000001283InformativeDirect
DomainGlutamine amidotransferase0.00000734Highly InformativeDirect
Molecular functionMagnesium0.000008166Least InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionNADP0Moderately InformativeDirect
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionNAD0.00000000000008826Moderately InformativeDirect
Molecular functionIron-sulfur0.0009605Moderately InformativeDirect
Molecular functionFMN0InformativeDirect
Molecular function3Fe-4S0Highly InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationIsomerase0Moderately InformativeDirect
Post-translational modificationRNA-binding1Moderately InformativeInherited
Post-translational modificationtRNA-binding0Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 28 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 FMN-linked oxidoreductases 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 28 hidden Markov models representing the FMN-linked oxidoreductases superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


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