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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 (3,176) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 28,374 154,584 53
Proteins 28,178 154,171 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)single-organism cellular process0.45520.09248Least InformativeInherited
Biological Process (BP)primary metabolic process0.99121Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.067920.1142Least InformativeInherited
Biological Process (BP)biosynthetic process0.0025260.0003547Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.10560.1691Least InformativeInherited
Biological Process (BP)biological regulation11Least InformativeInherited
Biological Process (BP)macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.0096870Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0043580.0141Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process10.4684Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.036190.07382Least InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.000020430.002803Moderately InformativeInherited
Biological Process (BP)multi-organism process0.089020.9859Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.0039030.2454Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process10.5571Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.60331Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative metabolic process0.095930.007799Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.048240.1364Moderately InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.46570.9776Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.016970.4954Moderately InformativeInherited
Biological Process (BP)gene expression0.090290.7464Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.045780.2349Moderately InformativeInherited
Biological Process (BP)tRNA metabolic process0.0000016410.000007431InformativeDirect
Biological Process (BP)nucleotide biosynthetic process0.00045310.0007271InformativeDirect
Biological Process (BP)RNA modification0.0000037530.0000005726InformativeDirect
Biological Process (BP)ncRNA processing0.000025790.000121InformativeDirect
Biological Process (BP)cellular metabolic compound salvage0.00045890.00000461InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.00015680.0006121InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process00InformativeDirect
Biological Process (BP)interspecies interaction between organisms0.063760.08515InformativeInherited
Biological Process (BP)monocarboxylic acid biosynthetic process0.20140.996InformativeInherited
Biological Process (BP)tRNA modification0.000000039210.000000001737Highly InformativeDirect
Biological Process (BP)nucleobase metabolic process0.00000000029990Highly InformativeDirect
Biological Process (BP)pyrimidine ribonucleotide metabolic process0.0000000013040.00000000004664Highly InformativeDirect
Biological Process (BP)hydrogen peroxide metabolic process0.0000012480.0000004251Highly InformativeDirect
Biological Process (BP)modification of morphology or physiology of other organism involved in symbiotic interaction0.0000048060.00007471Highly InformativeDirect
Biological Process (BP)viral process0.0000022020.01111Highly InformativeInherited
Biological Process (BP)pyrimidine nucleotide biosynthetic process0.0015710.000955Highly InformativeInherited
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)transferase activity11Least InformativeInherited
Molecular Function (MF)oxidoreductase activity00Moderately InformativeDirect
Molecular Function (MF)anion binding0.010550.0209Moderately InformativeInherited
Molecular Function (MF)carbohydrate derivative binding0.00032390.003362Moderately InformativeInherited
Molecular Function (MF)small molecule binding0.0085090.001941Moderately InformativeInherited
Molecular Function (MF)ribonucleotide binding0.000024760.008478InformativeInherited
Molecular Function (MF)transferase activity, transferring alkyl or aryl (other than methyl) groups0.0012740.001912InformativeInherited
Molecular Function (MF)prenyltransferase activity0.000053310.000005231Highly 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 membrane-bounded organelle0.21131Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.031840.2718Least InformativeInherited
Cellular Component (CC)microbody0.0000000000000013540.00000000000002355InformativeDirect

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 0.0003547 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0141 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.09248 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.1142 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.4684 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1691 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.07382 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.0007336 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.004102 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.002803 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.9859 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.2454 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.007799 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.1364 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.9776 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.5571 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.0171 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.01883 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.4954 Moderately Informative Inherited
Biological Process (BP) gene expression 0.7464 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.002369 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.2349 Moderately Informative Inherited
Biological Process (BP) tRNA metabolic process 0.000007431 Informative Direct
Biological Process (BP) glutamine family amino acid metabolic process 0.00000002724 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0.0007271 Informative Direct
Biological Process (BP) RNA modification 0.0000005726 Informative Direct
Biological Process (BP) ncRNA processing 0.000121 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.00000461 Informative Direct
Biological Process (BP) dicarboxylic acid metabolic process 0.000001229 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.0006121 Informative Direct
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.0007295 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0002718 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.00006118 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.02217 Informative Inherited
Biological Process (BP) interspecies interaction between organisms 0.08515 Informative Inherited
Biological Process (BP) monocarboxylic acid biosynthetic process 0.996 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.06617 Informative Inherited
Biological Process (BP) cellular lipid catabolic process 0.001401 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.3799 Informative Inherited
Biological Process (BP) pyrimidine nucleotide biosynthetic process 0.000955 Highly Informative Direct
Biological Process (BP) tRNA modification 0.000000001737 Highly Informative Direct
Biological Process (BP) glutamate metabolic process 0.000000008189 Highly Informative Direct
Biological Process (BP) fatty acid catabolic process 0.0002879 Highly Informative Direct
Biological Process (BP) nucleobase metabolic process 0 Highly Informative Direct
Biological Process (BP) nucleoside catabolic process 0.0000000001272 Highly Informative Direct
Biological Process (BP) pyrimidine ribonucleotide metabolic process 0.00000000004664 Highly Informative Direct
Biological Process (BP) hydrogen peroxide metabolic process 0.0000004251 Highly Informative Direct
Biological Process (BP) dicarboxylic acid biosynthetic process 0.000000000000259 Highly Informative Direct
Biological Process (BP) modification of morphology or physiology of other organism involved in symbiotic interaction 0.00007471 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 0.000000000002574 Highly Informative Direct
Biological Process (BP) viral process 0.01111 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 0.0209 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 0.003362 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.001941 Moderately Informative Inherited
Molecular Function (MF) ribonucleotide binding 0.008478 Informative Inherited
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.001912 Informative Inherited
Molecular Function (MF) prenyltransferase activity 0.000005231 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 0.0000001335 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.2718 Least Informative Inherited
Cellular Component (CC) microbody 0.00000000000002355 Informative Direct

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

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)fertile0Moderately InformativeDirect

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) 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

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Isomerases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on the CH-OH group of donors1Moderately InformativeInherited
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Intramolecular oxidoreductases0InformativeDirect
Enzyme Commission (EC)Acting on the CH-NH(2) group of donors0.5866InformativeInherited
Enzyme Commission (EC)Acting on single donors with incorporation of molecular oxygen (oxygenases). The oxygen incorporated1InformativeInherited
Enzyme Commission (EC)Acting on CH or CH(2) groups1InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1InformativeInherited
Enzyme Commission (EC)Acting on NADH or NADPH1InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)With a quinone or related compound as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Transposing C=C bonds0Highly InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.000000154Highly InformativeDirect
Enzyme Commission (EC)[Acyl-carrier-protein] S-malonyltransferase0.00004537Highly InformativeDirect
Enzyme Commission (EC)With incorporation of one atom of oxygen (internal monooxygenases or internal mixed function oxidase0.000056Highly InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor0.001743Highly InformativeInherited

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 processLipid biosynthesis0InformativeDirect
Biological processtRNA processing0InformativeDirect
Biological processDetoxification0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processPyrimidine biosynthesis0Highly InformativeDirect
Biological processPhospholipid metabolism0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentPeroxisome0.000000000001438InformativeDirect
DomainGlutamine amidotransferase0.000007503Highly InformativeDirect
Molecular functionMagnesium0.00000888Least InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionNADP0Moderately InformativeDirect
Molecular functionNAD0.0000000000001975Moderately InformativeDirect
Molecular functionFMN0InformativeDirect
Molecular function3Fe-4S0Highly InformativeDirect
Post-translational modificationIsomerase0Moderately InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationRNA-binding1Moderately InformativeInherited
Post-translational modificationtRNA-binding0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)aromatic compound metabolism0Least InformativeDirect
UniPathway (UP)lipid metabolism0.00000002431Least InformativeDirect
UniPathway (UP)amino-acid metabolism1Least InformativeInherited
UniPathway (UP)carbohydrate metabolism1Least InformativeInherited
UniPathway (UP)membrane lipid metabolism0Moderately InformativeDirect
UniPathway (UP)organic acid metabolism0.0000000000008871Moderately InformativeDirect
UniPathway (UP)nitrogen metabolism0.00001811Moderately InformativeDirect
UniPathway (UP)energy metabolism0.2282Moderately InformativeInherited
UniPathway (UP)fatty acid metabolism1Moderately InformativeInherited
UniPathway (UP)proteinogenic amino-acid biosynthesis1Moderately InformativeInherited
UniPathway (UP)UMP biosynthesis via de novo pathway0InformativeDirect
UniPathway (UP)L-glutamate metabolism0InformativeDirect
UniPathway (UP)organic acid biosynthesis0.00000000005831InformativeDirect
UniPathway (UP)carbohydrate acid metabolism0.03239InformativeInherited
UniPathway (UP)nonprotein amino-acid biosynthesis0.172InformativeInherited
UniPathway (UP)organic acid degradation1InformativeInherited
UniPathway (UP)beta-alanine biosynthesis0Highly InformativeDirect
UniPathway (UP)L-glutamate biosynthesis0Highly InformativeDirect
UniPathway (UP)glycerophospholipid metabolism0Highly InformativeDirect
UniPathway (UP)oxylipin biosynthesis0.00000001105Highly 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · 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 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]