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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 (3,171) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 28,326 145,394 53
Proteins 28,130 145,265 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)biosynthetic process0.000035710.000006128Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.002440.008923Least InformativeInherited
Biological Process (BP)biological regulation11Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.0032620Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.031290.06883Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.13750.2436Least InformativeInherited
Biological Process (BP)single-organism cellular process0.48290.2847Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.29990.0000000001937Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.094760.1641Least InformativeInherited
Biological Process (BP)primary metabolic process0.9080.9498Least InformativeInherited
Biological Process (BP)macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)multi-organism process0.094710.9601Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative biosynthetic process0.021080.5518Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.71671Moderately InformativeInherited
Biological Process (BP)gene expression0.077550.7087Moderately InformativeInherited
Biological Process (BP)regulation of cellular metabolic process0.77431Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process10.6193Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.0032890.2679Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.000019560.001831Moderately InformativeInherited
Biological Process (BP)nucleobase-containing compound biosynthetic process0.043110.7454Moderately InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.42860.9423Moderately InformativeInherited
Biological Process (BP)ribose phosphate metabolic process0.00078180.01382Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.014520.4637Moderately InformativeInherited
Biological Process (BP)tRNA metabolic process0.00000096880.00000385InformativeDirect
Biological Process (BP)nucleotide biosynthetic process0.00055730.0008215InformativeDirect
Biological Process (BP)RNA modification0.0000026180.0000003535InformativeDirect
Biological Process (BP)ncRNA processing0.000016810.00007783InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.00018430.0006673InformativeDirect
Biological Process (BP)pyrimidine-containing compound metabolic process0.000000000000017080InformativeDirect
Biological Process (BP)symbiosis, encompassing mutualism through parasitism0.0092140.06462InformativeInherited
Biological Process (BP)multi-organism cellular process0.0035720.07164InformativeInherited
Biological Process (BP)cellular metabolic compound salvage0.0056390.00007549InformativeInherited
Biological Process (BP)monocarboxylic acid biosynthetic process0.21371InformativeInherited
Biological Process (BP)tRNA modification0.000000024330.000000000955Highly InformativeDirect
Biological Process (BP)nucleobase metabolic process0.00000000045240Highly InformativeDirect
Biological Process (BP)pyrimidine ribonucleotide metabolic process0.0000000017030.0000000000605Highly InformativeDirect
Biological Process (BP)modification of morphology or physiology of other organism involved in symbiotic interaction0.000003640.00005353Highly InformativeDirect
Biological Process (BP)pyrimidine nucleotide biosynthetic process0.0016130.0009709Highly InformativeInherited
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)transferase activity11Least InformativeInherited
Molecular Function (MF)oxidoreductase activity00Moderately InformativeDirect
Molecular Function (MF)anion binding0.007440.01275Moderately InformativeInherited
Molecular Function (MF)carbohydrate derivative binding0.00021050.002209Moderately InformativeInherited
Molecular Function (MF)small molecule binding0.002560.0006563Moderately InformativeInherited
Molecular Function (MF)ribonucleotide binding0.000016370.008957InformativeInherited
Molecular Function (MF)transferase activity, transferring alkyl or aryl (other than methyl) groups0.001190.001766InformativeInherited
Molecular Function (MF)prenyltransferase activity0.000050960.000004664Highly 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 organelle0.17261Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.19670.7224Least InformativeInherited
Cellular Component (CC)microbody0.000000000000010740.0000000000001347InformativeDirect

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 0.000006128 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0000000001937 Least Informative Direct
Biological Process (BP) primary metabolic process 0.9498 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1641 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.008923 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.06883 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.2436 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.2847 Least Informative Inherited
Biological Process (BP) multi-organism process 0.9601 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative biosynthetic process 0.5518 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.0022 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.007179 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.008326 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.008802 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.6193 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) gene expression 0.7087 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.2679 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.001831 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing compound biosynthetic process 0.7454 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.9423 Moderately Informative Inherited
Biological Process (BP) ribose phosphate metabolic process 0.01382 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.4637 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.001925 Moderately Informative Inherited
Biological Process (BP) glycosyl compound metabolic process 0.04224 Moderately Informative Inherited
Biological Process (BP) tRNA metabolic process 0.00000385 Informative Direct
Biological Process (BP) glutamine family amino acid metabolic process 0.00000008523 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0.0008215 Informative Direct
Biological Process (BP) RNA modification 0.0000003535 Informative Direct
Biological Process (BP) ncRNA processing 0.00007783 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.00007549 Informative Direct
Biological Process (BP) dicarboxylic acid metabolic process 0.000007928 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.0006673 Informative Direct
Biological Process (BP) pyrimidine-containing compound metabolic process 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.0005489 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0005894 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.02069 Informative Inherited
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0.06462 Informative Inherited
Biological Process (BP) multi-organism cellular process 0.07164 Informative Inherited
Biological Process (BP) monocarboxylic acid biosynthetic process 1 Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.006958 Informative Inherited
Biological Process (BP) pyrimidine nucleotide biosynthetic process 0.0009709 Highly Informative Direct
Biological Process (BP) tRNA modification 0.000000000955 Highly Informative Direct
Biological Process (BP) glutamate metabolic process 0.00000003048 Highly Informative Direct
Biological Process (BP) nucleobase metabolic process 0 Highly Informative Direct
Biological Process (BP) pyrimidine ribonucleotide metabolic process 0.0000000000605 Highly Informative Direct
Biological Process (BP) dicarboxylic acid biosynthetic process 0.00000000000443 Highly Informative Direct
Biological Process (BP) modification of morphology or physiology of other organism involved in symbiotic interaction 0.00005353 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 0.0000000004708 Highly Informative Direct
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) small molecule binding 0.0006563 Moderately Informative Direct
Molecular Function (MF) anion binding 0.01275 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 0.002209 Moderately Informative Inherited
Molecular Function (MF) ribonucleotide binding 0.008957 Informative Inherited
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.001766 Informative Inherited
Molecular Function (MF) prenyltransferase activity 0.000004664 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 0.000001758 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.7224 Least Informative Inherited
Cellular Component (CC) microbody 0.0000000000001347 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 donors0.6473InformativeInherited
Enzyme Commission (EC)Acting on single donors with incorporation of molecular oxygen (oxygenases). The oxygen incorporated1InformativeInherited
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 acceptor0.0000004604Highly InformativeDirect
Enzyme Commission (EC)[Acyl-carrier-protein] S-malonyltransferase0.00004723Highly InformativeDirect
Enzyme Commission (EC)With incorporation of one atom of oxygen (internal monooxygenases or internal mixed function oxidase0.00005827Highly 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 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 componentPeroxisome0.000000000001214InformativeDirect
DomainGlutamine amidotransferase0.00002144Highly InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionNAD0Moderately InformativeDirect
Molecular functionMagnesium0.00000000000000962Moderately InformativeDirect
Molecular functionRNA-binding1Moderately InformativeInherited
Molecular functionFMN0InformativeDirect
Molecular functionNADP0InformativeDirect
Molecular functiontRNA-binding0InformativeDirect
Molecular function3Fe-4S0Highly InformativeDirect
Post-translational modificationIsomerase0Moderately InformativeDirect
Post-translational modificationOxidoreductase0Moderately 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 metabolism0.00000003709Least InformativeDirect
UniPathway (UP)amino-acid metabolism1Least InformativeInherited
UniPathway (UP)carbohydrate metabolism1Least InformativeInherited
UniPathway (UP)membrane lipid metabolism0Moderately InformativeDirect
UniPathway (UP)organic acid metabolism0.000000000003531Moderately InformativeDirect
UniPathway (UP)nitrogen metabolism0.00003173Moderately InformativeDirect
UniPathway (UP)energy metabolism0.2217Moderately 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 biosynthesis0.00000000007572InformativeDirect
UniPathway (UP)carbohydrate acid metabolism0.03214InformativeInherited
UniPathway (UP)nonprotein amino-acid biosynthesis0.1694InformativeInherited
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 biosynthesis0.00000001083Highly 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 ]