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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 (2,322) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 38,878 234,520 11
Proteins 36,901 229,317 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) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000000000000001945 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.00000000000002298 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.000000000174 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00000334 Least Informative Direct
Biological Process (BP) response to stimulus 0.00006656 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.4634 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.1388 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic 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) aromatic compound biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) single organism signaling 0.000000000000001945 Moderately Informative Direct
Biological Process (BP) cell communication 0.0000000000002952 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.0004362 Moderately Informative Direct
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.7071 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) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.3554 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.9912 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.8591 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.8993 Moderately Informative Inherited
Biological Process (BP) ribose phosphate biosynthetic process 0 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) system process 0.000000000000001945 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.000000006767 Informative Direct
Biological Process (BP) G-protein coupled receptor signaling pathway 0.00000004165 Informative Direct
Biological Process (BP) cellular response to lipid 0.0000001351 Informative Direct
Biological Process (BP) behavior 0.0000001501 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.000004228 Informative Direct
Biological Process (BP) cellular response to inorganic substance 0.000004369 Informative Direct
Biological Process (BP) response to nitrogen compound 0.0001319 Informative Direct
Biological Process (BP) regulation of locomotion 0.08405 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.4813 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.008658 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.2873 Informative Inherited
Biological Process (BP) response to oxidative stress 0.00259 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.001193 Informative Inherited
Biological Process (BP) regulation of secretion 0.1537 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.4392 Informative Inherited
Biological Process (BP) regulation of peptide transport 0.6454 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.646 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.7152 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.01521 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.113 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.5842 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.6132 Informative Inherited
Biological Process (BP) regulation of phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.2906 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.5158 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.03737 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.838 Informative Inherited
Biological Process (BP) locomotion 0.001899 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.2136 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 1 Informative Inherited
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Highly Informative Direct
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) single-organism behavior 0.0000000004499 Highly Informative Direct
Biological Process (BP) multicellular organismal homeostasis 0.000003045 Highly Informative Direct
Biological Process (BP) response to peptide hormone 0.0001153 Highly Informative Direct
Biological Process (BP) renal system process 0.0005741 Highly Informative Direct
Biological Process (BP) response to purine-containing compound 0.0006826 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.001968 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.03286 Highly Informative Inherited
Biological Process (BP) cellular response to reactive oxygen species 0.06618 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.07631 Highly Informative Inherited
Biological Process (BP) regulation of hormone secretion 0.02627 Highly Informative Inherited
Biological Process (BP) multi-organism cellular process 0.006894 Highly Informative Inherited
Biological Process (BP) activation of protein kinase activity 0.01517 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.2516 Highly Informative Inherited
Biological Process (BP) plasma membrane bounded cell projection organization 1 Highly Informative Inherited
Biological Process (BP) chemotaxis 0.002206 Highly Informative Inherited
Biological Process (BP) response to carbohydrate 0.009866 Highly Informative Inherited
Biological Process (BP) neuron development 0.4749 Highly Informative Inherited
Biological Process (BP) neurological system process 0.1545 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.5401 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.04087 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.000000000003589 Informative Direct
Molecular Function (MF) molecular transducer activity 0.00001981 Informative Direct
Molecular Function (MF) tetrapyrrole binding 0.00001998 Informative Direct
Molecular Function (MF) protein dimerization activity 0.06708 Informative Inherited
Molecular Function (MF) enzyme binding 0.5028 Informative Inherited
Molecular Function (MF) signal transducer activity 0.1601 Informative Inherited
Molecular Function (MF) manganese ion binding 0.000000002435 Highly Informative Direct
Molecular Function (MF) phosphoric diester hydrolase activity 0.000003709 Highly Informative Direct
Molecular Function (MF) heme binding 0.00001351 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 0.0003213 Highly Informative Direct
Cellular Component (CC) membrane 0.003934 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) macromolecular complex 1 Least Informative Inherited
Cellular Component (CC) cell projection 0.0000000001592 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 0.000000001156 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.000000758 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.00003268 Moderately Informative Direct
Cellular Component (CC) cilium 0 Informative Direct
Cellular Component (CC) intrinsic component of plasma membrane 0.000006788 Highly Informative Direct
Cellular Component (CC) motile cilium 0.0005175 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 phenotype0.2782Least InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.05983Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.1427Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal systemic arterial blood pressure0.03844InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel physiology0.1461InformativeInherited
Mammalian Phenotype (MP)increased systemic arterial systolic blood pressure0.0004694Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.004195Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vascular smooth muscle physiology0.01373Highly 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 variant0.00000000009361Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0000002034Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.1613Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.2938Moderately InformativeInherited
Worm Phenotype (WP)chemotaxis variant0InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00003276InformativeDirect
Worm Phenotype (WP)alkaline pH chemotaxis variant0.00000007014Highly InformativeDirect
Worm Phenotype (WP)osmotic avoidance variant0.0002726Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.17Highly InformativeInherited
Worm Phenotype (WP)pharyngeal pumping rate variant0.2516Highly InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant0.9969Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)sensory perception defective0.002037InformativeInherited

Document: FP 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)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)Nucleotidyltransferases0.03355Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0.0005623InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Adenylate cyclase0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processSensory transduction0InformativeDirect
Biological processChemotaxis0.0000000002261InformativeDirect
Biological processOsteogenesis0.000000001076Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCell membrane0.0000000005696Moderately InformativeDirect
Cellular componentCilium0.00009619InformativeDirect
Cellular componentFlagellum0.0001623Highly InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionMetal-binding0.00008305Least InformativeDirect
Molecular functionManganese0.0000000001433Moderately InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Molecular functionHeme0.000003871InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationCalmodulin-binding0.00000005776InformativeDirect
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) · Fly Phenotype (FP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · 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 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) · Fly Phenotype (FP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]