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C2 domain (Calcium/lipid-binding domain, CaLB) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   C2 domain-like [ 49561] (5)
Superfamily:   C2 domain (Calcium/lipid-binding domain, CaLB) [ 49562] (2)
Families:   PLC-like (P variant) [ 49563] (11)
  Synaptotagmin-like (S variant) [ 49575] (10)


Superfamily statistics
Genomes (514) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 47,971 127,967 37
Proteins 31,885 86,310 35


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
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)Phosphoric diester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Carboxylic ester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0.005268Moderately InformativeInherited
Enzyme Commission (EC)Phosphoinositide phospholipase C0InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phospholipase A(2)0Highly InformativeDirect
Enzyme Commission (EC)Protein kinase C0Highly InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-4,5-bisphosphate 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-4-phosphate 3-kinase2.368e-16Highly InformativeDirect
Enzyme Commission (EC)Lysophospholipase0.000000000002869Highly InformativeDirect
Enzyme Commission (EC)Phospholipase D0.0002652Highly 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 head0.2821Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.8951Least InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.211Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.4273Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.5754InformativeInherited
Phenotypic Abnormality (PA)Sarcoma0.0799Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.0247Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.1595Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.478Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7983Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.1939Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.5902Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5943Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.6058Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.005006InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology0.8119InformativeInherited
Mammalian Phenotype (MP)increased hamartoma incidence0.001438Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synapse morphology0.001861Highly InformativeInherited
Mammalian Phenotype (MP)increased skin tumor incidence0.002826Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cytotoxic T cell physiology0.3Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.000001864Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.000005057Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0001593Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.001682Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.006211Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.04558Least InformativeInherited
Worm Phenotype (WP)cell development variant0.08654Least InformativeInherited
Worm Phenotype (WP)protein expression variant0.00000002131Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant0.0001154Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.0001599Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.03482Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.09691Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.2514Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.485Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.5873Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6236Moderately InformativeInherited
Worm Phenotype (WP)body wall muscle sarcomere morphology variant0.00000006198InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00002346InformativeDirect
Worm Phenotype (WP)mitochondria morphology variant0.00003343InformativeDirect
Worm Phenotype (WP)defecation variant0.00004448InformativeDirect
Worm Phenotype (WP)growth rate variant0.00005366InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.0001196InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.0002313InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.000754InformativeDirect
Worm Phenotype (WP)neurite morphology variant0.000761InformativeDirect
Worm Phenotype (WP)drug resistant0.000893InformativeDirect
Worm Phenotype (WP)cell stress response variant0.001845InformativeInherited
Worm Phenotype (WP)pattern protein expression variant0.006462InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.009999InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.01526InformativeInherited
Worm Phenotype (WP)localized movement variant0.0525InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.133InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.7294InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000001352Highly InformativeDirect
Worm Phenotype (WP)drug induced gene expression variant0.000000001703Highly InformativeDirect
Worm Phenotype (WP)response to injury variant0.0000001368Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.0000002517Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.0000003471Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.000001173Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.0000137Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.00004118Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0001971Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0002879Highly InformativeDirect
Worm Phenotype (WP)male mating defective0.0002962Highly InformativeDirect
Worm Phenotype (WP)nose movement variant0.105Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)pollen tube cell0.00007155InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.00003916Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00000499Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.002584Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0.9219Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00005856InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.2141InformativeInherited
Enzyme Commission (EC)Carboxylic ester hydrolases1InformativeInherited
Enzyme Commission (EC)HECT-type E3 ubiquitin transferase0Highly InformativeDirect
Enzyme Commission (EC)Phosphoinositide phospholipase C0Highly InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase0.0006438Highly InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR008973 SSF49562 Protein matches
Abstract

The Ca2+-dependent, lipid-binding domain (CaLB) has been identified in a number of proteins, for example the amino-terminal, 138 amino acid C2 domain of cytosolic phospholipase A2 (cPLA2-C2) which mediates an initial step in the production of lipid mediators of inflammation: the Ca2+-dependent translocation of the enzyme to intracellular membranes with subsequent liberation of arachidonic acid. The domain is composed of eight antiparallel beta-strands with six interconnecting loops that fits the "type II" topology for C2 domains. The structure has been identified as a beta-sandwich in the "Greek key" motif [PubMed9665851].


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) · 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 45 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 C2 domain (Calcium/lipid-binding domain, CaLB) 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 45 hidden Markov models representing the C2 domain (Calcium/lipid-binding domain, CaLB) 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) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]