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Cytidine deaminase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Cytidine deaminase-like [ 53926] (2)
Superfamily:   Cytidine deaminase-like [ 53927] (5)
Families:   Cytidine deaminase [ 53928] (3)
  Deoxycytidylate deaminase-like [ 89800] (7)
  Hypothetical protein TM1506 [ 110651]
  AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC [ 64198]
  FdhD/NarQ [ 159821]


Superfamily statistics
Genomes (3,224) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 17,685 96,623 31
Proteins 17,068 94,422 30


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)cellular aromatic compound metabolic process00Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process00Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.0000052030Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)primary metabolic process0.00011750.03129Least InformativeInherited
Biological Process (BP)macromolecule metabolic process0.0082320.8577Least InformativeInherited
Biological Process (BP)single-organism cellular process0.020370.0002759Least InformativeInherited
Biological Process (BP)biosynthetic process10.9791Least InformativeInherited
Biological Process (BP)biological regulation0.14211Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.81750.2712Least InformativeInherited
Biological Process (BP)response to stimulus10.8465Least InformativeInherited
Biological Process (BP)negative regulation of cellular process0.000000029440.00000004035Moderately InformativeDirect
Biological Process (BP)carbohydrate derivative metabolic process0.00046970Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process0.047380.0002963Moderately InformativeInherited
Biological Process (BP)response to external stimulus0.021480.00003036Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.00000019040.4837Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.043751Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.00010810.9564Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.62490.05839Moderately InformativeInherited
Biological Process (BP)defense response0.0077040.00000002139Moderately InformativeInherited
Biological Process (BP)response to biotic stimulus0.0030360.0000000001149Moderately InformativeInherited
Biological Process (BP)immune system process0.0012780.000000006439Moderately InformativeInherited
Biological Process (BP)single-organism catabolic process0.0014920.0000006661Moderately InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.00034360.4223Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.000042920.4605Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.006010.0000604Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.0000066930.7487Moderately InformativeInherited
Biological Process (BP)regulation of cellular component organization0.00000083760.03916Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.0083810.8387Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.054910.03601Moderately InformativeInherited
Biological Process (BP)multi-organism process0.2650.001877Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.74290.1497Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.35110.2805Moderately InformativeInherited
Biological Process (BP)DNA metabolic process00InformativeDirect
Biological Process (BP)RNA modification0.00005550.00000000000009208InformativeDirect
Biological Process (BP)nucleobase-containing compound catabolic process0.000063090.00000000001602InformativeDirect
Biological Process (BP)cellular metabolic compound salvage0.0000010920.00000000476InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process0.0000001660.0000000487InformativeDirect
Biological Process (BP)defense response to other organism0.00050940InformativeDirect
Biological Process (BP)carbohydrate derivative catabolic process00InformativeDirect
Biological Process (BP)glycosyl compound metabolic process0.00000000000045540InformativeDirect
Biological Process (BP)negative regulation of cellular component organization0.000000065380.001423InformativeInherited
Biological Process (BP)positive regulation of nucleobase-containing compound metabolic process0.0000023410.02338InformativeInherited
Biological Process (BP)regulation of organelle organization0.0015570.001311InformativeInherited
Biological Process (BP)immune effector process0.0050570.0000000001336InformativeInherited
Biological Process (BP)positive regulation of gene expression0.0000000063310.04326InformativeInherited
Biological Process (BP)positive regulation of macromolecule biosynthetic process0.00000000012230.01897InformativeInherited
Biological Process (BP)positive regulation of cellular biosynthetic process0.0000000016680.03273InformativeInherited
Biological Process (BP)nucleobase metabolic process0.000013140.0001379Highly InformativeDirect
Biological Process (BP)nucleoside catabolic process00Highly InformativeDirect
Biological Process (BP)response to virus0.00012440Highly InformativeDirect
Biological Process (BP)regulation of chromosome organization00.000000003881Highly InformativeDirect
Biological Process (BP)regulation of gene expression, epigenetic00.000000001427Highly InformativeDirect
Biological Process (BP)negative regulation of multi-organism process0.00049810.0000000008591Highly InformativeDirect
Biological Process (BP)pyrimidine ribonucleoside metabolic process00Highly InformativeDirect
Biological Process (BP)regulation of viral process0.00000017590.000000000000001925Highly InformativeDirect
Biological Process (BP)regulation of DNA metabolic process0.00000000000008880.00000003877Highly InformativeDirect
Biological Process (BP)demethylation00Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound catabolic process0.000000000000014920Highly InformativeDirect
Biological Process (BP)DNA methylation or demethylation0.35251Highly InformativeInherited
Molecular Function (MF)hydrolase activity0.0000000000000040710Least InformativeDirect
Molecular Function (MF)binding0.020910.3463Least InformativeInherited
Molecular Function (MF)metal ion binding0.0059240.00004327Moderately InformativeInherited
Molecular Function (MF)zinc ion binding0.00000084580.00000000002891InformativeDirect
Molecular Function (MF)hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds00InformativeDirect
Molecular Function (MF)hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines00Highly InformativeDirect
Molecular Function (MF)deaminase activity00Highly InformativeDirect
Cellular Component (CC)cytoplasmic part10.4462Least InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.89020.07597Least InformativeInherited
Cellular Component (CC)ribonucleoprotein granule0.000098910InformativeDirect
Cellular Component (CC)P-body0.0000043660Highly InformativeDirect

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 aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0002759 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0.03129 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.8577 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.2712 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8465 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.9791 Least Informative Inherited
Biological Process (BP) immune system process 0.000000006439 Moderately Informative Direct
Biological Process (BP) defense response 0.00000002139 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.00003036 Moderately Informative Direct
Biological Process (BP) response to biotic stimulus 0.0000000001149 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.0000604 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.0000006661 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00000004035 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0002963 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.4837 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.9564 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.2805 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.002989 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.4223 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.4605 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.1497 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.7487 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.03916 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.8387 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.001877 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.05839 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.03601 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.7522 Moderately Informative Inherited
Biological Process (BP) purine-containing compound metabolic process 0.09678 Moderately Informative Inherited
Biological Process (BP) immune effector process 0.0000000001336 Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) tRNA metabolic process 0.0000003729 Informative Direct
Biological Process (BP) RNA modification 0.00000000000009208 Informative Direct
Biological Process (BP) ncRNA processing 0.0002394 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.00000000001602 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.00000000476 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.0003365 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0.0006099 Informative Direct
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.0000000487 Informative Direct
Biological Process (BP) defense response to other organism 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.001423 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.02338 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.001311 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.04326 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.01897 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.03273 Informative Inherited
Biological Process (BP) water-soluble vitamin biosynthetic process 0.1923 Informative Inherited
Biological Process (BP) nucleotide biosynthetic process 0.01216 Informative Inherited
Biological Process (BP) nucleobase metabolic process 0.0001379 Highly Informative Direct
Biological Process (BP) nucleoside catabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside monophosphate biosynthetic process 0.000000000938 Highly Informative Direct
Biological Process (BP) response to virus 0 Highly Informative Direct
Biological Process (BP) regeneration 0.0002497 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0.000000003881 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.000000001427 Highly Informative Direct
Biological Process (BP) negative regulation of multi-organism process 0.0000000008591 Highly Informative Direct
Biological Process (BP) pyrimidine ribonucleoside metabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of viral process 0.000000000000001925 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.00000003877 Highly Informative Direct
Biological Process (BP) demethylation 0 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 0 Highly Informative Direct
Biological Process (BP) DNA methylation or demethylation 1 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.3463 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) metal ion binding 0.00004327 Moderately Informative Direct
Molecular Function (MF) zinc ion binding 0.00000000002891 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.000002082 Informative Direct
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0 Informative Direct
Molecular Function (MF) identical protein binding 0.00005105 Informative Direct
Molecular Function (MF) hydroxymethyl-, formyl- and related transferase activity 0 Highly Informative Direct
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines 0 Highly Informative Direct
Molecular Function (MF) deaminase activity 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.4462 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.07597 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein granule 0 Informative Direct
Cellular Component (CC) P-body 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)In cyclic amidines0InformativeDirect
Enzyme Commission (EC)Hydroxymethyl-, formyl- and related transferases0InformativeDirect
Enzyme Commission (EC)IMP cyclohydrolase0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processImmunity0.00000000003272Moderately InformativeDirect
Biological processPurine biosynthesis0InformativeDirect
Biological processInnate immunity0InformativeDirect
Biological processMolybdenum cofactor biosynthesis0Highly InformativeDirect
Biological processAntiviral defense0Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0.0005004Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect

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 23 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 Cytidine deaminase-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 23 hidden Markov models representing the Cytidine deaminase-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 ]