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NagB/RpiA/CoA transferase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   NagB/RpiA/CoA transferase-like [ 100949]
Superfamily:   NagB/RpiA/CoA transferase-like [ 100950] (8)
Families:   NagB-like [ 52513] (2)
  D-ribose-5-phosphate isomerase (RpiA), catalytic domain [ 75176]
  CoA transferase beta subunit-like [ 74657] (3)
  CoA transferase alpha subunit-like [ 74656] (6)
  IF2B-like [ 110513] (5)
  Methenyltetrahydrofolate synthetase [ 110520] (3)
  YkgG-like [ 142200]
  SorC sugar-binding domain-like [ 159545] (5)


Superfamily statistics
Genomes (3,205) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 34,512 190,694 41
Proteins 31,321 173,423 34


Functional annotation
General category Metabolism
Detailed category Transferases

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)cellular nitrogen compound metabolic process0.000041150.00001059Least InformativeDirect
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)single-organism cellular process0.30790.1792Least InformativeInherited
Biological Process (BP)response to stimulus0.85481Least InformativeInherited
Biological Process (BP)macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.94541Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.3820.5933Least InformativeInherited
Biological Process (BP)biosynthetic process0.65010.06375Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.65381Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.91810.000005777Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.37160.9302Least InformativeInherited
Biological Process (BP)multicellular organismal process0.2761Least InformativeInherited
Biological Process (BP)peptide metabolic process0.00000021130.0000000000001326Moderately InformativeDirect
Biological Process (BP)gene expression0.00000028890.0000000000003822Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.000000048630.00000000000003269Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00018270.000001587Moderately InformativeDirect
Biological Process (BP)carbohydrate derivative metabolic process0.0000033860.0000007929Moderately InformativeDirect
Biological Process (BP)cell differentiation0.00034130.7114Moderately InformativeInherited
Biological Process (BP)reproduction0.019940.1292Moderately InformativeInherited
Biological Process (BP)organic substance catabolic process0.022760.1962Moderately InformativeInherited
Biological Process (BP)response to oxygen-containing compound0.37760.4963Moderately InformativeInherited
Biological Process (BP)response to organic substance0.70021Moderately InformativeInherited
Biological Process (BP)animal organ development0.35531Moderately InformativeInherited
Biological Process (BP)cofactor metabolic process0.0014050.0000001359Moderately InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.0040120.00000008478Moderately InformativeInherited
Biological Process (BP)cellular aldehyde metabolic process0.000058180.000000000000001925InformativeDirect
Biological Process (BP)central nervous system development0.000000030660.00006651InformativeDirect
Biological Process (BP)pyridine-containing compound metabolic process0.00029480.00000000000733InformativeDirect
Biological Process (BP)carbohydrate derivative catabolic process0.0000000022440.000006537InformativeDirect
Biological Process (BP)developmental process involved in reproduction0.12830.02047InformativeInherited
Biological Process (BP)multicellular organism reproduction0.039250.02205InformativeInherited
Biological Process (BP)oxidoreduction coenzyme metabolic process0.14260.01721InformativeInherited
Biological Process (BP)cell development0.0001290.09711InformativeInherited
Biological Process (BP)reproductive system development0.015220.0009092InformativeInherited
Biological Process (BP)cellular modified amino acid metabolic process0.00013820.005645InformativeInherited
Biological Process (BP)single organism reproductive process0.0041750.05603InformativeInherited
Biological Process (BP)amino sugar metabolic process00.00000000004771Highly InformativeDirect
Biological Process (BP)translational initiation00Highly InformativeDirect
Biological Process (BP)NADP metabolic process0.00000000055040Highly InformativeDirect
Biological Process (BP)folic acid-containing compound metabolic process0.0000073890.0003073Highly InformativeDirect
Biological Process (BP)sex differentiation0.000021820.00004664Highly InformativeDirect
Biological Process (BP)response to carbohydrate0.00025410.0008668Highly InformativeDirect
Biological Process (BP)glyceraldehyde-3-phosphate metabolic process0.00000028740Highly InformativeDirect
Biological Process (BP)ovulation cycle process0.000002670.000000000007921Highly InformativeDirect
Biological Process (BP)gliogenesis0.00000000000016430.00000000000097Highly InformativeDirect
Biological Process (BP)glucose 6-phosphate metabolic process0.000000072690Highly InformativeDirect
Molecular Function (MF)binding0.079210.8017Least InformativeInherited
Molecular Function (MF)hydrolase activity11Least InformativeInherited
Molecular Function (MF)transferase activity10.8899Least InformativeInherited
Molecular Function (MF)isomerase activity0.000000000078680Moderately InformativeDirect
Molecular Function (MF)molecular function regulator0.00000073280.000000001428Moderately InformativeDirect
Molecular Function (MF)anion binding0.010780.1089Moderately InformativeInherited
Molecular Function (MF)carbohydrate derivative binding0.0043680.01644Moderately InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds0.0027120.000004687Moderately InformativeInherited
Molecular Function (MF)nucleic acid binding0.0000034040.001549Moderately InformativeInherited
Molecular Function (MF)small molecule binding0.015210.003009Moderately InformativeInherited
Molecular Function (MF)RNA binding0.00039710.000000004948InformativeDirect
Molecular Function (MF)transferase activity, transferring sulfur-containing groups0.0000000024460InformativeDirect
Molecular Function (MF)intramolecular oxidoreductase activity00InformativeDirect
Molecular Function (MF)purine ribonucleoside triphosphate binding0.000026790.0004639InformativeDirect
Molecular Function (MF)carboxylic ester hydrolase activity0.0000000077040.00000002267InformativeDirect
Molecular Function (MF)ligase activity0.0000010580.002961InformativeInherited
Molecular Function (MF)purine nucleoside binding0.000030090.000001036Highly InformativeDirect
Molecular Function (MF)guanyl-nucleotide exchange factor activity0.0000000015380.0000000000002072Highly InformativeDirect
Molecular Function (MF)translation factor activity, RNA binding00Highly InformativeDirect
Molecular Function (MF)intramolecular oxidoreductase activity, interconverting aldoses and ketoses00Highly InformativeDirect
Molecular Function (MF)deaminase activity00Highly InformativeDirect
Cellular Component (CC)protein complex0.00052060.00001876Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.1020.000000002268Least 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) cellular nitrogen compound metabolic process 0.00001059 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.000005777 Least Informative Direct
Biological Process (BP) biosynthetic process 0.06375 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1792 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.5933 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.9302 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) peptide metabolic process 0.0000000000001326 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0.00000008478 Moderately Informative Direct
Biological Process (BP) gene expression 0.0000000000003822 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00000000000003269 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0.000001587 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0.0000001359 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.0000007929 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.7114 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1292 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.1962 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.4963 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.2453 Moderately Informative Inherited
Biological Process (BP) animal organ development 1 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.2626 Moderately Informative Inherited
Biological Process (BP) cellular aldehyde metabolic process 0.000000000000001925 Informative Direct
Biological Process (BP) central nervous system development 0.00006651 Informative Direct
Biological Process (BP) reproductive system development 0.0009092 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0.00000000000733 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.000006537 Informative Direct
Biological Process (BP) developmental process involved in reproduction 0.02047 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.02205 Informative Inherited
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.01721 Informative Inherited
Biological Process (BP) cell development 0.09711 Informative Inherited
Biological Process (BP) response to temperature stimulus 0.0027 Informative Inherited
Biological Process (BP) cellular modified amino acid metabolic process 0.005645 Informative Inherited
Biological Process (BP) single organism reproductive process 0.05603 Informative Inherited
Biological Process (BP) amino sugar metabolic process 0.00000000004771 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) NADP metabolic process 0 Highly Informative Direct
Biological Process (BP) folic acid-containing compound metabolic process 0.0003073 Highly Informative Direct
Biological Process (BP) sex differentiation 0.00004664 Highly Informative Direct
Biological Process (BP) response to heat 0.00006071 Highly Informative Direct
Biological Process (BP) response to carbohydrate 0.0008668 Highly Informative Direct
Biological Process (BP) glyceraldehyde-3-phosphate metabolic process 0 Highly Informative Direct
Biological Process (BP) ovulation cycle process 0.000000000007921 Highly Informative Direct
Biological Process (BP) gliogenesis 0.00000000000097 Highly Informative Direct
Biological Process (BP) glucose 6-phosphate metabolic process 0 Highly Informative Direct
Molecular Function (MF) binding 0.8017 Least Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) transferase activity 0.8899 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.000004687 Moderately Informative Direct
Molecular Function (MF) isomerase activity 0 Moderately Informative Direct
Molecular Function (MF) molecular function regulator 0.000000001428 Moderately Informative Direct
Molecular Function (MF) anion binding 0.1089 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.003009 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 0.01644 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.001549 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0.000000004948 Informative Direct
Molecular Function (MF) transferase activity, transferring sulfur-containing groups 0 Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity 0 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.0004639 Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0.00000002267 Informative Direct
Molecular Function (MF) ribonucleotide binding 0.005122 Informative Inherited
Molecular Function (MF) ligase activity 0.002961 Informative Inherited
Molecular Function (MF) purine nucleotide binding 0.04211 Informative Inherited
Molecular Function (MF) purine nucleoside binding 0.000001036 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.0000000000002072 Highly Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0 Highly Informative Direct
Molecular Function (MF) thiolester hydrolase activity 0.00008181 Highly Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity, interconverting aldoses and ketoses 0 Highly Informative Direct
Molecular Function (MF) deaminase activity 0 Highly Informative Direct
Cellular Component (CC) protein complex 0.00001876 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000002268 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Isomerases0Least InformativeDirect
Enzyme Commission (EC)Ligases1Least InformativeInherited
Enzyme Commission (EC)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Intramolecular oxidoreductases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.00000000000001442Moderately InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds1Moderately InformativeInherited
Enzyme Commission (EC)Interconverting aldoses and ketoses, and related c0InformativeDirect
Enzyme Commission (EC)Thiolester hydrolases0.00002533InformativeDirect
Enzyme Commission (EC)Cyclo-ligases0.01457InformativeInherited
Enzyme Commission (EC)In other compounds0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processCarbohydrate metabolism0Moderately InformativeDirect
Biological processMethionine biosynthesis0Highly InformativeDirect
Post-translational modificationHydrolase0.0000006075Least InformativeDirect
Post-translational modificationIsomerase0Moderately InformativeDirect
Post-translational modificationRepressor0.0000008125Moderately InformativeDirect
Post-translational modificationInitiation factor0.00000000538InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 32 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 NagB/RpiA/CoA transferase-like 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 32 hidden Markov models representing the NagB/RpiA/CoA transferase-like 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) · UniProtKB KeyWords (KW) · Internal database links ]