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 (2,962) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 21,455 47,234 55
Proteins 21,387 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 process0.012222.819e-06Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.0092550.4268Least InformativeInherited
Biological Process (BP)single-organism cellular process0.29271Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.021720.008093Least InformativeInherited
Biological Process (BP)cellular protein modification process0.00013341.675e-06Moderately InformativeDirect
Biological Process (BP)organelle organization0.0042921.195e-09Moderately InformativeInherited
Biological Process (BP)chromosome organization5.923e-060InformativeDirect
Biological Process (BP)histone modification0.00017830Highly InformativeDirect
Biological Process (BP)protein deacylation8.3e-120Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.019216.994e-06Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides3.921e-090InformativeDirect
Molecular Function (MF)deacetylase activity6.738e-160Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.087140.0001606Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.093980.001079Least 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 2.819e-06 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 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) cellular macromolecule metabolic process 0.4268 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2347 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 0.01444 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.008093 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.1527 Least Informative Inherited
Biological Process (BP) cellular protein modification process 1.675e-06 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 1.351e-08 Moderately Informative Direct
Biological Process (BP) organelle organization 1.195e-09 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 6.997e-08 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 6.201e-07 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0004965 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.01312 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.2746 Moderately Informative Inherited
Biological Process (BP) macromolecule catabolic process 0.7837 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.1184 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.01014 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.03858 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.06877 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.9733 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 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.8744 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.939 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.7683 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.674 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.2488 Moderately Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 2.742e-10 Informative Direct
Biological Process (BP) negative regulation of gene expression 5.475e-10 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0.0008783 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 4.718e-11 Informative Direct
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) protein catabolic process 0.4069 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.5095 Informative Inherited
Biological Process (BP) cellular biogenic amine metabolic process 1 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.003931 Informative Inherited
Biological Process (BP) generation of neurons 0.8855 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.1534 Informative Inherited
Biological Process (BP) regulation of cell development 0.2756 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.06508 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.6572 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.4755 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.3138 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.01731 Informative Inherited
Biological Process (BP) aging 2.376e-06 Highly Informative Direct
Biological Process (BP) branched-chain amino acid metabolic process 2.177e-11 Highly Informative Direct
Biological Process (BP) proteasomal protein catabolic process 1.957e-05 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 8.921e-06 Highly Informative Direct
Biological Process (BP) gene silencing 2.415e-12 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) protein deacylation 0 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 9.916e-10 Highly Informative Direct
Biological Process (BP) cellular biogenic amine catabolic process 2.716e-07 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-dependent 1.206e-11 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 2.835e-05 Highly Informative Direct
Biological Process (BP) regulation of neural precursor cell proliferation 1.253e-06 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.06986 Highly Informative Inherited
Biological Process (BP) negative regulation of cell proliferation 0.177 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.03358 Highly Informative Inherited
Biological Process (BP) protein glycosylation 0.0244 Highly Informative Inherited
Biological Process (BP) alcohol biosynthetic process 0.0477 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 6.994e-06 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) lyase activity 6.513e-08 Moderately Informative Direct
Molecular Function (MF) cation binding 6.578e-05 Moderately Informative Direct
Molecular Function (MF) anion binding 0.001294 Moderately Informative Inherited
Molecular Function (MF) electron carrier activity 1.89e-06 Informative Direct
Molecular Function (MF) transferase activity, transferring glycosyl groups 4.381e-05 Informative Direct
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides 0 Informative Direct
Molecular Function (MF) carbon-carbon lyase activity 4.377e-09 Informative Direct
Molecular Function (MF) transition metal ion binding 0.0005552 Informative Direct
Molecular Function (MF) cofactor binding 0 Informative Direct
Molecular Function (MF) sulfur compound binding 5.288e-05 Informative Direct
Molecular Function (MF) nucleotide binding 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring pentosyl groups 4.926e-12 Highly Informative Direct
Molecular Function (MF) deacetylase activity 0 Highly Informative Direct
Molecular Function (MF) NAD binding 2.411e-12 Highly Informative Direct
Molecular Function (MF) carboxy-lyase activity 0.003243 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.0001606 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.001079 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.05374 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.9343 Least Informative Inherited
Cellular Component (CC) organelle envelope 2.355e-05 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 6.969e-10 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 9.225e-07 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) cell projection 0.9696 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.1038 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.2062 Moderately Informative Inherited
Cellular Component (CC) chromosome 2.652e-08 Informative Direct
Cellular Component (CC) mitochondrial matrix 0.0002503 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.2533 Informative Inherited
Cellular Component (CC) neuron projection 0.226 Informative Inherited
Cellular Component (CC) cell-cell junction 0.07324 Informative Inherited
Cellular Component (CC) chromatin 0.0003939 Highly Informative Direct
Cellular Component (CC) midbody 4.945e-06 Highly Informative Direct
Cellular Component (CC) axon part 0.0002509 Highly Informative Direct
Cellular Component (CC) microtubule organizing center part 3.005e-06 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 1.689e-14 Highly Informative Direct
Cellular Component (CC) spindle 0.002848 Highly Informative Inherited
Cellular Component (CC) cell body 0.01478 Highly Informative Inherited
Cellular Component (CC) centrosome 0.001127 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)abnormal homeostasis0.007449Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.03429Least InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.06724Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.07405Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.2071Moderately InformativeInherited
Mammalian Phenotype (MP)increased sterol level0.0009058InformativeDirect
Mammalian Phenotype (MP)abnormal circulating lipid level0.001853InformativeInherited
Mammalian Phenotype (MP)abnormal cholesterol level0.004873InformativeInherited
Mammalian Phenotype (MP)abnormal induced cell death0.007523InformativeInherited
Mammalian Phenotype (MP)increased sensitivity to induced cell death0.0003032Highly InformativeDirect
Mammalian Phenotype (MP)hepatic steatosis0.0005913Highly InformativeDirect

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)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least 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 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)Lyases0.0002568Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Carboxy-lyases6.848e-08InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0.03002InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor3.266e-11Highly InformativeDirect
Enzyme Commission (EC)Acyl groups converted into alkyl on transfer0.004096Highly 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 processTransport0.5748Least InformativeInherited
Biological processTranscription regulation0.000544Moderately InformativeDirect
Biological processAmino-acid biosynthesis0.1536Moderately InformativeInherited
Biological processElectron transport0InformativeDirect
Biological processNitrogen fixation0.0002732InformativeDirect
Biological processBranched-chain amino acid biosynthesis0Highly InformativeDirect
Biological processMenaquinone biosynthesis0Highly InformativeDirect
Biological processMethanogenesis3.359e-09Highly InformativeDirect
Cellular componentMitochondrion6.373e-16Moderately InformativeDirect
DomainTransit peptide0Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionFAD0InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase8.845e-16Least InformativeDirect
Post-translational modificationRepressor1.229e-06Moderately InformativeDirect
Post-translational modificationLyase5.013e-06Moderately 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)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)amine and polyamine metabolism3.086e-13Moderately InformativeDirect
UniPathway (UP)one-carbon metabolism0.005428Moderately InformativeInherited
UniPathway (UP)carnitine metabolism0InformativeDirect
UniPathway (UP)methanogenesis1.629e-11InformativeDirect
UniPathway (UP)protein maturation0Highly InformativeDirect
UniPathway (UP)methanogenesis from acetate2.184e-14Highly 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) · 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 ]