SUPERFAMILY 1.75 HMM library and genome assignments server

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 (3,217) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 17,619 93,848 31
Proteins 17,004 89,996 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)nitrogen compound metabolic process0.00000000000034920Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.0000018190.0000000000006487Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.000017230.8358Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.00020740.3674Least InformativeInherited
Biological Process (BP)regulation of cellular process0.67290.6706Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)biosynthetic process11Least InformativeInherited
Biological Process (BP)cellular catabolic process0.000003020.0000001635Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.00000016070.0000005322Moderately InformativeDirect
Biological Process (BP)nucleobase-containing small molecule metabolic process0.000000011640Moderately InformativeDirect
Biological Process (BP)carbohydrate derivative metabolic process0.000000000058590Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process0.000023930.000001169Moderately InformativeDirect
Biological Process (BP)positive regulation of metabolic process0.017190.614Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.55841Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.000013740.9793Moderately InformativeInherited
Biological Process (BP)immune system process0.0028720Moderately InformativeInherited
Biological Process (BP)regulation of cellular component organization0.000030420.05498Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.000000000041390.1653Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.12851Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.021811Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.11090.1225Moderately InformativeInherited
Biological Process (BP)multi-organism process0.12810.00003261Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.93770.2853Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.81850.8285Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.90350.242Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.98860.5075Moderately InformativeInherited
Biological Process (BP)DNA metabolic process0.000000000000087830InformativeDirect
Biological Process (BP)RNA modification0.00028420.00000000002823InformativeDirect
Biological Process (BP)regulation of organelle organization0.00000019020.0007658InformativeDirect
Biological Process (BP)nucleobase-containing compound catabolic process0.000021560.00000009033InformativeDirect
Biological Process (BP)cellular metabolic compound salvage0.000010860.000003689InformativeDirect
Biological Process (BP)negative regulation of cellular component organization0.00000045020.000921InformativeDirect
Biological Process (BP)pyrimidine-containing compound metabolic process00InformativeDirect
Biological Process (BP)carbohydrate derivative catabolic process0.0000000000000016880InformativeDirect
Biological Process (BP)organonitrogen compound catabolic process0.0000000000069940.00000000005477InformativeDirect
Biological Process (BP)immune effector process0.0078570.000009407InformativeInherited
Biological Process (BP)defense response0.044380.0000001769InformativeInherited
Biological Process (BP)positive regulation of macromolecule biosynthetic process0.000000034920.103InformativeInherited
Biological Process (BP)positive regulation of cellular biosynthetic process0.00000010190.1478InformativeInherited
Biological Process (BP)positive regulation of nucleobase-containing compound metabolic process0.00003610.1127InformativeInherited
Biological Process (BP)positive regulation of gene expression0.017160.09719InformativeInherited
Biological Process (BP)DNA modification00Highly InformativeDirect
Biological Process (BP)response to virus0.000056630Highly InformativeDirect
Biological Process (BP)regulation of gene expression, epigenetic00.000000000000007347Highly InformativeDirect
Biological Process (BP)regulation of multi-organism process0.00011680.000000005221Highly InformativeDirect
Biological Process (BP)pyrimidine ribonucleoside metabolic process00Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound catabolic process00Highly InformativeDirect
Biological Process (BP)positive regulation of transcription, DNA-dependent0.0000000062760.05682Highly InformativeInherited
Molecular Function (MF)hydrolase activity0.00000000089050Least InformativeDirect
Molecular Function (MF)binding0.17051Least InformativeInherited
Molecular Function (MF)cation binding0.0051660.0001522Moderately InformativeInherited
Molecular Function (MF)zinc ion binding0.0000013180.0000000001733InformativeDirect
Molecular Function (MF)hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds00InformativeDirect
Molecular Function (MF)deaminase activity00Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.62070.1798Least InformativeInherited
Cellular Component (CC)cytoplasmic part10.17Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex0.076720.0000000111Moderately InformativeInherited
Cellular Component (CC)cytoplasmic mRNA processing body0.0000028920Highly 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) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0000000000006487 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) regulation of metabolic process 0.8358 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.6706 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.3674 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) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) immune system process 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.0000001635 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0000005322 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.00003261 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.000001169 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.614 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.9793 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.05498 Moderately Informative Inherited
Biological Process (BP) organ development 0.2322 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.4188 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.4977 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.1653 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.1225 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.8285 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.2853 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.242 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.5075 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 0.1725 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9345 Moderately Informative Inherited
Biological Process (BP) immune effector process 0.000009407 Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) defense response 0.0000001769 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0.0005194 Informative Direct
Biological Process (BP) RNA modification 0.00000000002823 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0007658 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.00000009033 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.000003689 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.000005904 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 0.000000003459 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.000921 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0.0002769 Informative Direct
Biological Process (BP) pyrimidine-containing compound metabolic process 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0.00000000005477 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.6008 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.103 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.1478 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.1127 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.09719 Informative Inherited
Biological Process (BP) vitamin metabolic process 0.02766 Informative Inherited
Biological Process (BP) nucleoside monophosphate metabolic process 0.03362 Informative Inherited
Biological Process (BP) RNA processing 0.3286 Informative Inherited
Biological Process (BP) ncRNA metabolic process 0.1876 Informative Inherited
Biological Process (BP) DNA modification 0 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate biosynthetic process 0.00000009169 Highly Informative Direct
Biological Process (BP) purine ribonucleoside monophosphate metabolic process 0.000609 Highly Informative Direct
Biological Process (BP) response to virus 0 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.000000000000007347 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0.000000005221 Highly Informative Direct
Biological Process (BP) pyrimidine ribonucleoside metabolic process 0 Highly Informative Direct
Biological Process (BP) pyrimidine-containing compound catabolic process 0 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.05682 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) cation binding 0.0001522 Moderately Informative Direct
Molecular Function (MF) zinc ion binding 0.0000000001733 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.00000002047 Informative Direct
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0 Informative Direct
Molecular Function (MF) protein dimerization activity 0.0004467 Informative Direct
Molecular Function (MF) hydroxymethyl-, formyl- and related transferase activity 0 Highly Informative Direct
Molecular Function (MF) deaminase activity 0 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.1798 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.17 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0.0000000111 Moderately Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing 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

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)no abnormal phenotype detected0Highly InformativeDirect

Document: MP 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

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0Moderately InformativeDirect
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds0Moderately InformativeDirect
Enzyme Commission (EC)Acting on the CH-OH group of donors1Moderately InformativeInherited
Enzyme Commission (EC)Hydroxymethyl-, formyl- and related transferases0InformativeDirect
Enzyme Commission (EC)In cyclic amidines0InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.9075InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processInnate immunity0InformativeDirect
Biological processPurine biosynthesis0InformativeDirect
Biological processAntiviral defense0Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0.00003006Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)aromatic compound metabolism0Least InformativeDirect
UniPathway (UP)cofactor metabolism1Least InformativeInherited
UniPathway (UP)nucleotide metabolism0Moderately InformativeDirect
UniPathway (UP)purine metabolism0Moderately InformativeDirect
UniPathway (UP)IMP biosynthesis via de novo pathway0InformativeDirect
UniPathway (UP)riboflavin biosynthesis0.00000000007144Highly 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) · Yeast Phenotype (YP) · 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 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]