SUPERFAMILY 1.75 HMM library and genome assignments server

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cAMP-binding domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Double-stranded beta-helix [ 51181] (7)
Superfamily:   cAMP-binding domain-like [ 51206] (3)
Families:   CO-sensing protein CooA, N-terminal domain [ 51207]
  Listeriolysin regulatory protein PrfA, N-terminal domain [ 89419]
  cAMP-binding domain [ 51210] (12)

Superfamily statistics
Genomes (2,678) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 29,253 158,938 34
Proteins 23,953 141,881 30

Functional annotation
General category Regulation
Detailed category Signal transduction

Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.00000000000634Moderately InformativeDirect
Enzyme Commission (EC)Lysophospholipase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.0394Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.2235Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.5514Least InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.05631Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.2493Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal cardiovascular system physiology0.6676Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of vision0.09681InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system electrophysiology0.1759InformativeInherited
Phenotypic Abnormality (PA)Abnormal electroretinogram0.0002424Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal atrioventricular conduction0.001106Highly InformativeInherited
Phenotypic Abnormality (PA)Heart block0.003041Highly InformativeInherited
Phenotypic Abnormality (PA)Color vision defect0.0189Highly InformativeInherited
Phenotypic Abnormality (PA)Arrhythmia0.1035Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.1263Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.1948Least InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.1012Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.2506Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.5615Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heartbeat0.0003036InformativeDirect
Mammalian Phenotype (MP)abnormal olfactory bulb layer morphology0.01567Highly InformativeInherited
Mammalian Phenotype (MP)abnormal heart atrium morphology0.08019Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism behavior variant0.01222Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.01689Least InformativeInherited
Worm Phenotype (WP)blast cell physiology variant0.02651Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.02657Least InformativeInherited
Worm Phenotype (WP)cell development variant0.03625Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.2358Least InformativeInherited
Worm Phenotype (WP)movement variant0.00002839Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.001138Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.004251Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.004511Moderately InformativeInherited
Worm Phenotype (WP)body region morphology variant0.01871Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.01871Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.01878Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.01884Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.2178Moderately InformativeInherited
Worm Phenotype (WP)drug response variant0.7279Moderately InformativeInherited
Worm Phenotype (WP)positive chemotaxis variant0.00000009601InformativeDirect
Worm Phenotype (WP)drug resistant0.0003388InformativeDirect
Worm Phenotype (WP)directionality variant0.0006436InformativeDirect
Worm Phenotype (WP)body bend variant0.0008499InformativeDirect
Worm Phenotype (WP)male mating variant0.0008628InformativeDirect
Worm Phenotype (WP)protein metabolism variant0.0009066InformativeDirect
Worm Phenotype (WP)cell fate specification variant0.002883InformativeInherited
Worm Phenotype (WP)body posture variant0.005755InformativeInherited
Worm Phenotype (WP)localized movement variant0.012InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.02159InformativeInherited
Worm Phenotype (WP)egg laying variant0.08606InformativeInherited
Worm Phenotype (WP)velocity of movement variant0.1345InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant0.000000004067Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.00000008044Highly InformativeDirect
Worm Phenotype (WP)odorant negative chemotaxis defective0.0000001063Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.0000003205Highly InformativeDirect
Worm Phenotype (WP)loss of left right asymmetry0.0000003589Highly InformativeDirect
Worm Phenotype (WP)neuronal cell fate specification variant0.000001382Highly InformativeDirect
Worm Phenotype (WP)neuron physiology variant0.00005444Highly InformativeDirect
Worm Phenotype (WP)coiling frequency0.0001294Highly InformativeDirect
Worm Phenotype (WP)dumpy0.0001808Highly InformativeDirect
Worm Phenotype (WP)body posture wavelength variant0.0001826Highly InformativeDirect
Worm Phenotype (WP)path curvature variant0.0001826Highly InformativeDirect
Worm Phenotype (WP)forward point velocity variant0.0001958Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.0002144Highly InformativeDirect
Worm Phenotype (WP)backward point velocity variant0.0002191Highly InformativeDirect
Worm Phenotype (WP)thermotaxis variant0.0003279Highly InformativeDirect
Worm Phenotype (WP)egg laying defective0.0003388Highly InformativeDirect
Worm Phenotype (WP)amplitude of sinusoidal movement variant0.000403Highly InformativeDirect
Worm Phenotype (WP)frequency of body bend variant0.0004333Highly InformativeDirect
Worm Phenotype (WP)growth rate variant0.0008815Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.1013Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)sensory perception defective0.000758InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.03975Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)early tailbud stage0.05945Highly InformativeInherited

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)Transferring phosphorus-containing groups0.05603Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.000000000006694Moderately InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR000595 SSF51206 Protein matches
Abstract Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues [PubMed14638413, PubMed10550204, PubMed1710853]. The best studied of these proteins is the prokaryotic catabolite gene activator (also known as the cAMP receptor protein) (gene crp) where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure. There are six invariant amino acids in this domain, three of which are glycine residues that are thought to be essential for maintenance of the structural integrity of the beta-barrel. cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain. The cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain. The cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section. Vertebrate cyclic nucleotide-gated ion-channels also contain this domain. Two such cations channels have been fully characterised, one is found in rod cells where it plays a role in visual signal transduction.

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 · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 43 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 cAMP-binding domain-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 43 hidden Markov models representing the cAMP-binding domain-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 · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]