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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 (3,169) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 28,305 145,394 53
Proteins 28,111 145,265 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)regulation of metabolic process11Least InformativeInherited
Biological Process (BP)regulation of cellular process11Least InformativeInherited
Biological Process (BP)biosynthetic process0.0032510.005547Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.18630.05487Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.24350.0005761Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.021960.0002566Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.080230.01151Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.40720.0000002283Least InformativeInherited
Biological Process (BP)phosphate-containing compound metabolic process0.87631Moderately InformativeInherited
Biological Process (BP)lipid biosynthetic process0.15290.2013Moderately InformativeInherited
Biological Process (BP)organophosphate metabolic process0.22280.9011Moderately InformativeInherited
Biological Process (BP)cellular lipid metabolic process0.17060.1313Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.26220.5395Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.17250.4963Moderately InformativeInherited
Biological Process (BP)organonitrogen compound biosynthetic process0.0089830.00009451Moderately InformativeInherited
Biological Process (BP)multi-organism process0.046380.3991Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.53911Moderately InformativeInherited
Biological Process (BP)single-organism biosynthetic process10.489Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process0.0071840.1112Moderately InformativeInherited
Biological Process (BP)gene expression0.054150.725Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.004480.4132Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.083340.312Moderately InformativeInherited
Biological Process (BP)nucleobase-containing small molecule metabolic process0.033860.0000005765Moderately InformativeInherited
Biological Process (BP)RNA modification0.00000018540.00000005896InformativeDirect
Biological Process (BP)ncRNA metabolic process0.000025240.0001362InformativeDirect
Biological Process (BP)pyrimidine-containing compound metabolic process0.0000000073140InformativeDirect
Biological Process (BP)phospholipid metabolic process0.0079010.05954InformativeInherited
Biological Process (BP)glycerolipid metabolic process0.011790.1807InformativeInherited
Biological Process (BP)RNA processing0.00011740.01063InformativeInherited
Biological Process (BP)cellular metabolic compound salvage0.0031630.00004053InformativeInherited
Biological Process (BP)monocarboxylic acid biosynthetic process0.2680.4751InformativeInherited
Biological Process (BP)nucleobase metabolic process0.00000000030920Highly InformativeDirect
Biological Process (BP)photorespiration0.000000028040.000000000699Highly InformativeDirect
Biological Process (BP)modification of morphology or physiology of other organism0.000005640.00006232Highly InformativeDirect
Biological Process (BP)glycerophospholipid biosynthetic process0.00020260.0009565Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process0.000000000011860.000000000000176Highly InformativeDirect
Biological Process (BP)symbiosis, encompassing mutualism through parasitism0.00086840.00742Highly InformativeInherited
Biological Process (BP)multi-organism cellular process0.000058610.003467Highly InformativeInherited
Biological Process (BP)tRNA modification0.0017130.0003928Highly InformativeInherited
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)transferase activity11Least InformativeInherited
Molecular Function (MF)oxidoreductase activity00Moderately InformativeDirect
Molecular Function (MF)anion binding0.044370.1337Moderately InformativeInherited
Molecular Function (MF)cofactor binding0.0000056870.000000006924InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on CH-OH group of donors0.49480.9287InformativeInherited
Molecular Function (MF)nucleotide binding0.0027190.0007474InformativeInherited
Molecular Function (MF)transferase activity, transferring alkyl or aryl (other than methyl) groups0.00081980.001373InformativeInherited
Molecular Function (MF)prenyltransferase activity0.000025020.000002502Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on the CH-CH group of donors00Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.14431Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.17760.356Least InformativeInherited
Cellular Component (CC)microbody0.00000000000022420.000000000001276InformativeDirect

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 0.0005761 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0000002283 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0002566 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.05487 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.005547 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.01151 Least Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.0000005765 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.00009451 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.2013 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.9011 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.1313 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.05744 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.5395 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.4963 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.3991 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.1112 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.489 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.108 Moderately Informative Inherited
Biological Process (BP) gene expression 0.725 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.4132 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.04844 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.00726 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.3102 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.312 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.05214 Moderately Informative Inherited
Biological Process (BP) RNA modification 0.00000005896 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.0001362 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.00004053 Informative Direct
Biological Process (BP) pyrimidine-containing compound metabolic process 0 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.05954 Informative Inherited
Biological Process (BP) glycerolipid metabolic process 0.1807 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.8534 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 0.1948 Informative Inherited
Biological Process (BP) glycosyl compound catabolic process 0.1472 Informative Inherited
Biological Process (BP) RNA processing 0.01063 Informative Inherited
Biological Process (BP) monocarboxylic acid biosynthetic process 0.4751 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.1451 Informative Inherited
Biological Process (BP) lactate metabolic process 0.0001002 Highly Informative Direct
Biological Process (BP) tRNA modification 0.0003928 Highly Informative Direct
Biological Process (BP) nucleobase metabolic process 0 Highly Informative Direct
Biological Process (BP) photorespiration 0.000000000699 Highly Informative Direct
Biological Process (BP) modification of morphology or physiology of other organism 0.00006232 Highly Informative Direct
Biological Process (BP) glycerophospholipid biosynthetic process 0.0009565 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.000000000000176 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 0 Highly Informative Direct
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0.00742 Highly Informative Inherited
Biological Process (BP) multi-organism cellular process 0.003467 Highly Informative Inherited
Biological Process (BP) glutamate metabolic process 0.002654 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 0.1337 Moderately Informative Inherited
Molecular Function (MF) nucleotide binding 0.0007474 Informative Direct
Molecular Function (MF) cofactor binding 0.000000006924 Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on CH-OH group of donors 0.9287 Informative Inherited
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.001373 Informative Inherited
Molecular Function (MF) prenyltransferase activity 0.000002502 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 0 Highly Informative Direct
Molecular Function (MF) NADP binding 0.0002275 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.356 Least Informative Inherited
Cellular Component (CC) microbody 0.000000000001276 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 donors0.8044InformativeInherited
Enzyme Commission (EC)Acting on single donors with incorporation of molecular oxygen1InformativeInherited
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 acceptor0.00000005889Highly InformativeDirect
Enzyme Commission (EC)[Acyl-carrier-protein] S-malonyltransferase0.00003357Highly InformativeDirect
Enzyme Commission (EC)With incorporation of one atom of oxygen0.00004178Highly 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 biosynthesis0.000000000000003233InformativeDirect
Biological processDetoxification0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processPyrimidine biosynthesis0Highly InformativeDirect
Biological processPhospholipid metabolism0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentPeroxisome0.0000000000001186InformativeDirect
DomainGlutamine amidotransferase0.00002068Highly InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionFMN0InformativeDirect
Molecular functionNADP0InformativeDirect
Molecular functionIron-sulfur0.000005095InformativeDirect
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)amino-acid metabolism0.00008873Least InformativeDirect
UniPathway (UP)nonprotein amino-acid biosynthesis0InformativeDirect

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 ]