SUPERFAMILY 1.75 HMM library and genome assignments server


DHS-like NAD/FAD-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   DHS-like NAD/FAD-binding domain [ 52466]
Superfamily:   DHS-like NAD/FAD-binding domain [ 52467] (6)
Families:   Deoxyhypusine synthase, DHS [ 52468]
  C-terminal domain of the electron transfer flavoprotein alpha subunit [ 52471]
  Pyruvate oxidase and decarboxylase, middle domain [ 52475] (8)
  Transhydrogenase domain III (dIII) [ 52484]
  Sir2 family of transcriptional regulators [ 63984] (7)
  ACDE2-like [ 142130]


Superfamily statistics
Genomes (2,358) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 17,698 47,234 55
Proteins 17,633 47,154 55


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)protein metabolic process0.0012523.743e-05Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.010810.6575Least InformativeInherited
Biological Process (BP)cellular protein modification process5.067e-050.001547Moderately InformativeInherited
Biological Process (BP)protein deacylation1.08e-130Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.0038410.0002441Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides1.425e-060InformativeDirect
Molecular Function (MF)deacetylase activity00Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.099660.0001105Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.10110.06944Least 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) protein metabolic process 3.743e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.6575 Least Informative Inherited
Biological Process (BP) single-organism 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) regulation of metabolic process 0.2474 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.02381 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.2802 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.468 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 3.041e-06 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 9.236e-06 Moderately Informative Direct
Biological Process (BP) organelle organization 0.0001885 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.000591 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0009852 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.03326 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.1389 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.05742 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.02554 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.03577 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.001547 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.8928 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.08725 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.2317 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.1469 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.05749 Moderately Informative Inherited
Biological Process (BP) chromosome organization 1.61e-12 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 5.461e-09 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 2.019e-08 Informative Direct
Biological Process (BP) negative regulation of cellular metabolic process 1.218e-06 Informative Direct
Biological Process (BP) cellular biogenic amine metabolic process 4.325e-05 Informative Direct
Biological Process (BP) regulation of response to stress 0.4498 Informative Inherited
Biological Process (BP) protein catabolic process 0.2078 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.3104 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.0204 Informative Inherited
Biological Process (BP) proteolysis 0.8431 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.03153 Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.4604 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.009632 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.05863 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.061 Informative Inherited
Biological Process (BP) protein deacylation 0 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) branched-chain amino acid metabolic process 1.11e-11 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 8.135e-11 Highly Informative Direct
Biological Process (BP) negative regulation of RNA metabolic process 1.104e-09 Highly Informative Direct
Biological Process (BP) histone modification 2.373e-09 Highly Informative Direct
Biological Process (BP) negative regulation of cellular macromolecule biosynthetic process 4.45e-09 Highly Informative Direct
Biological Process (BP) negative regulation of gene expression 1.089e-08 Highly Informative Direct
Biological Process (BP) cellular biogenic amine catabolic process 1.458e-07 Highly Informative Direct
Biological Process (BP) aromatic amino acid family catabolic process 2.628e-06 Highly Informative Direct
Biological Process (BP) proteasomal protein catabolic process 3.72e-06 Highly Informative Direct
Biological Process (BP) aging 3.583e-05 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 6.069e-05 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.03248 Highly Informative Inherited
Biological Process (BP) protein glycosylation 0.01052 Highly Informative Inherited
Biological Process (BP) alcohol biosynthetic process 0.1767 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.0002441 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) lyase activity 1.047e-07 Moderately Informative Direct
Molecular Function (MF) cation binding 3.255e-05 Moderately Informative Direct
Molecular Function (MF) anion binding 0.0009669 Moderately Informative Direct
Molecular Function (MF) heterocyclic compound binding 0.01332 Moderately Informative Inherited
Molecular Function (MF) organic cyclic compound binding 0.01647 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides 0 Informative Direct
Molecular Function (MF) cofactor binding 0 Informative Direct
Molecular Function (MF) electron carrier activity 3.096e-10 Informative Direct
Molecular Function (MF) carbon-carbon lyase activity 3.571e-08 Informative Direct
Molecular Function (MF) transferase activity, transferring glycosyl groups 0.0002001 Informative Direct
Molecular Function (MF) nucleotide binding 1 Informative Inherited
Molecular Function (MF) transition metal ion binding 0.003177 Informative Inherited
Molecular Function (MF) deacetylase activity 0 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 3.3e-11 Highly Informative Direct
Molecular Function (MF) sulfur compound binding 2.133e-06 Highly Informative Direct
Molecular Function (MF) zinc ion binding 0.000343 Highly Informative Direct
Molecular Function (MF) carboxy-lyase activity 0.00892 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.0001105 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.06944 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.3364 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) mitochondrial part 1.145e-10 Moderately Informative Direct
Cellular Component (CC) organelle envelope 1.957e-05 Moderately Informative Direct
Cellular Component (CC) organelle membrane 0.0579 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.001701 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.9673 Moderately Informative Inherited
Cellular Component (CC) chromosome 2.912e-05 Informative Direct
Cellular Component (CC) nuclear chromosome part 1.56e-09 Highly Informative Direct
Cellular Component (CC) chromatin 0.007195 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)Lyases0.003317Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Carboxy-lyases5.466e-06Moderately InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)Acting on NADH or NADPH0.02009Moderately InformativeInherited
Enzyme Commission (EC)NAD(P)(+) transhydrogenase (AB-specific)0Highly InformativeDirect
Enzyme Commission (EC)In ketonic substances1Highly InformativeInherited
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.06622Least InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.07664Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.3778Moderately InformativeInherited
Mammalian Phenotype (MP)hepatic steatosis0.0005993Highly InformativeDirect
Mammalian Phenotype (MP)abnormal induced cell death0.001026Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)male genitalia0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)collective leaf structure0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0.003903Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases4.77e-16Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Carboxy-lyases5.666e-07InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0.01911InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor3.149e-11Highly InformativeDirect
Enzyme Commission (EC)Acyl groups converted into alkyl on transfer0.004019Highly InformativeInherited
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited
Enzyme Commission (EC)In ketonic substances1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.5963Least InformativeInherited
Biological processTranscription regulation0.0003753Moderately InformativeDirect
Biological processAmino-acid biosynthesis0.1429Moderately InformativeInherited
Biological processElectron transport0InformativeDirect
Biological processNitrogen fixation0.0002874InformativeDirect
Biological processBranched-chain amino acid biosynthesis0Highly InformativeDirect
Biological processMenaquinone biosynthesis0Highly InformativeDirect
Biological processMethanogenesis2.641e-09Highly InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
DomainTransit peptide0Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionFAD0InformativeDirect
Molecular functionFlavoprotein0InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase4.42e-16Least InformativeDirect
Post-translational modificationRepressor1.517e-06Moderately InformativeDirect
Post-translational modificationLyase0.0001016Moderately InformativeDirect
Post-translational modificationDecarboxylase0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)cofactor metabolism6.56e-12Least InformativeDirect
UniPathway (UP)biopolymer metabolism6.244e-07Least InformativeDirect
UniPathway (UP)amino-acid metabolism1Least InformativeInherited
UniPathway (UP)alcohol metabolism0Moderately InformativeDirect
UniPathway (UP)amine and polyamine metabolism6.566e-06Moderately InformativeDirect
UniPathway (UP)one-carbon metabolism0.03749Moderately InformativeInherited
UniPathway (UP)secondary metabolite metabolism0.2578Moderately InformativeInherited
UniPathway (UP)energy metabolism0.4496Moderately InformativeInherited
UniPathway (UP)nitrogen metabolism0.4813Moderately InformativeInherited
UniPathway (UP)amino-acid degradation0.5056Moderately InformativeInherited
UniPathway (UP)proteinogenic amino-acid biosynthesis1Moderately InformativeInherited
UniPathway (UP)L-isoleucine biosynthesis0InformativeDirect
UniPathway (UP)carnitine metabolism0InformativeDirect
UniPathway (UP)quinone cofactor biosynthesis0InformativeDirect
UniPathway (UP)methanogenesis1.793e-07InformativeDirect
UniPathway (UP)alkaloid metabolism2.739e-05InformativeDirect
UniPathway (UP)alcohol degradation0.04179InformativeInherited
UniPathway (UP)alcohol biosynthesis0.8007InformativeInherited
UniPathway (UP)L-valine biosynthesis0Highly InformativeDirect
UniPathway (UP)myo-inositol degradation into acetyl-CoA0Highly InformativeDirect
UniPathway (UP)menaquinone biosynthesis0Highly InformativeDirect
UniPathway (UP)methanogenesis from acetate9.95e-14Highly InformativeDirect
UniPathway (UP)organosulfur metabolism5.268e-08Highly InformativeDirect
UniPathway (UP)(R,R)-butane-2,3-diol metabolism0.0009876Highly InformativeDirect
UniPathway (UP)polyol biosynthesis0.227Highly InformativeInherited

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) · 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 25 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 DHS-like NAD/FAD-binding domain 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 25 hidden Markov models representing the DHS-like NAD/FAD-binding domain 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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]