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Nucleotide cyclase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   Nucleotide cyclase [ 55073] (2)
Families:   Adenylyl and guanylyl cyclase catalytic domain [ 55074] (5)
  GGDEF domain [ 117984]


Superfamily statistics
Genomes (2,317) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 38,759 165,870 11
Proteins 36,802 162,958 11


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details) 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) biosynthetic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0 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) cellular nitrogen compound metabolic process 0.00000000000001409 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00000000004634 Least Informative Direct
Biological Process (BP) response to stimulus 0.00001035 Least Informative Direct
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.04776 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.08421 Least Informative Inherited
Biological Process (BP) carbohydrate derivative biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) purine-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) nucleobase-containing compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) ribose phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) cell communication 0.0000000000001005 Moderately Informative Direct
Biological Process (BP) signaling 0.00000000000205 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.0007603 Moderately Informative Direct
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) response to stress 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.9301 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.7579 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.8935 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.4345 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.991 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.8517 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) ribose phosphate biosynthetic process 0 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0 Informative Direct
Biological Process (BP) system process 0.00000000000003068 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.000000007058 Informative Direct
Biological Process (BP) cellular response to lipid 0.00000004227 Informative Direct
Biological Process (BP) behavior 0.0000001539 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.000005062 Informative Direct
Biological Process (BP) response to nitrogen compound 0.00003304 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.4718 Informative Inherited
Biological Process (BP) regulation of locomotion 0.1433 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.2198 Informative Inherited
Biological Process (BP) response to inorganic substance 0.001389 Informative Inherited
Biological Process (BP) response to oxidative stress 0.00221 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.001227 Informative Inherited
Biological Process (BP) regulation of secretion 0.2391 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.4269 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.6638 Informative Inherited
Biological Process (BP) regulation of protein localization 0.8039 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.002082 Informative Inherited
Biological Process (BP) multi-organism cellular process 0.5769 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.1821 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.5759 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.6878 Informative Inherited
Biological Process (BP) regulation of phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.2382 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.805 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.2458 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.0325 Informative Inherited
Biological Process (BP) locomotion 0.001019 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) generation of neurons 0.8918 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.6226 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.01154 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 1 Informative Inherited
Biological Process (BP) regulation of cyclic nucleotide metabolic process 0 Highly Informative Direct
Biological Process (BP) positive regulation of nucleotide metabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Highly Informative Direct
Biological Process (BP) single-organism behavior 0.0000000003589 Highly Informative Direct
Biological Process (BP) G-protein coupled receptor signaling pathway 0.0000000436 Highly Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.000001521 Highly Informative Direct
Biological Process (BP) detection of stimulus 0.000005869 Highly Informative Direct
Biological Process (BP) biofilm formation 0.00003847 Highly Informative Direct
Biological Process (BP) renal system process 0.00008799 Highly Informative Direct
Biological Process (BP) response to peptide hormone 0.00009877 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.001638 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.02912 Highly Informative Inherited
Biological Process (BP) cellular response to reactive oxygen species 0.06817 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.06966 Highly Informative Inherited
Biological Process (BP) regulation of peptide transport 0.008173 Highly Informative Inherited
Biological Process (BP) regulation of hormone secretion 0.0257 Highly Informative Inherited
Biological Process (BP) sensory perception 0.2465 Highly Informative Inherited
Biological Process (BP) activation of protein kinase activity 0.01806 Highly Informative Inherited
Biological Process (BP) neuron development 0.4307 Highly Informative Inherited
Biological Process (BP) chemotaxis 0.002878 Highly Informative Inherited
Biological Process (BP) response to purine-containing compound 0.001129 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.2193 Highly Informative Inherited
Biological Process (BP) cell projection organization 0.2564 Highly Informative Inherited
Biological Process (BP) response to carbohydrate 0.01035 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.6587 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.06348 Moderately Informative Inherited
Molecular Function (MF) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.00000000003046 Informative Direct
Molecular Function (MF) molecular transducer activity 0.0000159 Informative Direct
Molecular Function (MF) tetrapyrrole binding 0.0000186 Informative Direct
Molecular Function (MF) protein dimerization activity 0.04183 Informative Inherited
Molecular Function (MF) enzyme binding 0.452 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.03558 Informative Inherited
Molecular Function (MF) signal transducer activity 0.1333 Informative Inherited
Molecular Function (MF) manganese ion binding 0.000000001226 Highly Informative Direct
Molecular Function (MF) heme binding 0.00001268 Highly Informative Direct
Molecular Function (MF) phosphoric diester hydrolase activity 0.00001443 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 0.0004526 Highly Informative Direct
Cellular Component (CC) membrane 0.003368 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intrinsic component of membrane 0.0000000004439 Moderately Informative Direct
Cellular Component (CC) cell projection 0.0000000006088 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.0000007287 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.00002465 Moderately Informative Direct
Cellular Component (CC) cilium 0 Informative Direct
Cellular Component (CC) intrinsic component of plasma membrane 0.000002144 Highly Informative Direct
Cellular Component (CC) motile cilium 0.0001351 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)Lyases0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.01671Least InformativeInherited
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Adenylate cyclase0Highly InformativeDirect
Enzyme Commission (EC)Guanylate cyclase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details) Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.2554Least InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.06165Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.1597Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal systemic arterial blood pressure0.04005InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel physiology0.1524InformativeInherited
Mammalian Phenotype (MP)increased systemic arterial systolic blood pressure0.000474Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.004429Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vascular smooth muscle physiology0.01364Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.00000000003309Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0000001668Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.1828Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.2879Moderately InformativeInherited
Worm Phenotype (WP)chemotaxis variant0InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00002199InformativeDirect
Worm Phenotype (WP)sexually dimorphic behavior variant0.1423InformativeInherited
Worm Phenotype (WP)alkaline pH chemotaxis variant0.00000006105Highly InformativeDirect
Worm Phenotype (WP)osmotic avoidance variant0.0001985Highly InformativeDirect
Worm Phenotype (WP)male mating defective0.000927Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.1613Highly InformativeInherited
Worm Phenotype (WP)pharyngeal pumping rate variant0.2408Highly InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant0.9899Highly InformativeInherited

Document: WP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)sensory system0Moderately InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect
Zebrafish Anatomy (ZA)cell0Moderately InformativeDirect
Zebrafish Anatomy (ZA)eye0InformativeDirect
Zebrafish Anatomy (ZA)electrically signaling cell0InformativeDirect
Zebrafish Anatomy (ZA)electrically responsive cell1InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.03626Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0.0005561InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Adenylate cyclase0Highly InformativeDirect

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)cardiovascular system0.001987Least InformativeInherited
Drugbank ATC_code (DB)cardiac therapy0.00007393Moderately InformativeDirect
Drugbank ATC_code (DB)vasodilators used in cardiac diseases0.000000002889InformativeDirect
Drugbank ATC_code (DB)organic nitrates0.000000000204Highly InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processSensory transduction0InformativeDirect
Biological processChemotaxis0.0000000002198InformativeDirect
Biological processOsteogenesis0.0000000009537Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCell membrane0.0000000004365Moderately InformativeDirect
Cellular componentCilium0.0001159InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionMetal-binding0.0000000004617Least InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0.00000000000192Moderately InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Molecular functionCalmodulin-binding0.0000002717InformativeDirect
Molecular functionHeme0.000003919InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)glycan metabolism0Moderately InformativeDirect
UniPathway (UP)cellulose metabolism0InformativeDirect
UniPathway (UP)cellulose biosynthesis0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR001054 SSF55073 Protein matches
Abstract

Guanylate cyclases catalyse the formation of cyclic GMP (cGMP) from GTP. cGMP acts as an intracellular messenger, activating cGMP-dependent kinases and regulating cGMP-sensitive ion channels. The role of cGMP as a second messenger in vascular smooth muscle relaxation and retinal photo-transduction is well established. Guanylate cyclase is found both in the soluble and particulate fractions of eukaryotic cells. The soluble and plasma membrane-bound forms differ in structure, regulation and other properties [PubMed1349465, PubMed1356629, PubMed1680765, PubMed1982420]. Most currently known plasma membrane-bound forms are receptors for small polypeptides. The soluble forms of guanylate cyclase are cytoplasmic heterodimers having alpha and beta subunits.

In all characterised eukaryote guanylyl- and adenylyl cyclases, cyclic nucleotide synthesis is carried out by the conserved class III cyclase domain.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · 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 6 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 Nucleotide cyclase 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 6 hidden Markov models representing the Nucleotide cyclase 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]