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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 0 37
Proteins 31,885 0 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 nervous system morphology0.9742Least 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 phenotype0.02465Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.16Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4784Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7981Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.1941Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.5902Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5952Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.6063Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.005014InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology0.8119InformativeInherited
Mammalian Phenotype (MP)increased hamartoma incidence0.001438Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synapse morphology0.001864Highly InformativeInherited
Mammalian Phenotype (MP)increased skin tumor incidence0.002827Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cytotoxic T cell physiology0.2999Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.000004728Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.000007061Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0001523Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.004082Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.005736Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.04541Least InformativeInherited
Worm Phenotype (WP)protein expression variant0.00000002006Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant0.0001249Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.0001532Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.03413Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.07644Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.2259Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.3503Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6955Moderately InformativeInherited
Worm Phenotype (WP)body wall muscle sarcomere morphology variant0.00000005357InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00002327InformativeDirect
Worm Phenotype (WP)defecation variant0.0000274InformativeDirect
Worm Phenotype (WP)mitochondria morphology variant0.00003248InformativeDirect
Worm Phenotype (WP)growth rate variant0.00005354InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.0003526InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.0007059InformativeDirect
Worm Phenotype (WP)drug resistant0.0009275InformativeDirect
Worm Phenotype (WP)cell stress response variant0.001822InformativeInherited
Worm Phenotype (WP)pattern protein expression variant0.006635InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.0101InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.01467InformativeInherited
Worm Phenotype (WP)localized movement variant0.03876InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.1127InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.7177InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000001341Highly InformativeDirect
Worm Phenotype (WP)drug induced gene expression variant0.000000001684Highly InformativeDirect
Worm Phenotype (WP)response to injury variant0.0000001414Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.0000002515Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.0000003445Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.0000008767Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.00001416Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.00004683Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0001664Highly InformativeDirect
Worm Phenotype (WP)male mating defective0.0002667Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0002767Highly InformativeDirect
Worm Phenotype (WP)nose movement variant0.1051Highly 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)Acyltransferases0.00000462Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00208Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0.9217Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00005805InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.2133InformativeInherited
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 kinase0.0006852Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.9113Least InformativeInherited
Biological processDifferentiation0Moderately InformativeDirect
Biological processImmunity0Moderately InformativeDirect
Biological processLipid metabolism0Moderately InformativeDirect
Biological processUbl conjugation pathway2.452e-16Moderately InformativeDirect
Biological processApoptosis4.87e-16Moderately InformativeDirect
Biological processAutophagy0InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processInflammatory response0InformativeDirect
Biological processLipid degradation0InformativeDirect
Biological processLipid transport0InformativeDirect
Biological processAngiogenesis0.000000000000002402InformativeDirect
Biological processCell adhesion0.000000002304InformativeDirect
Biological processChemotaxis0.00002735InformativeDirect
Biological processPlant defense0.0005351InformativeDirect
Biological processSensory transduction0.04474InformativeInherited
Biological processExocytosis0Highly InformativeDirect
Biological processAbscisic acid signaling pathway0Highly InformativeDirect
Biological processNeurotransmitter transport0.000000000000002402Highly InformativeDirect
Biological processFertilization0.000000002024Highly InformativeDirect
Biological processPhagocytosis0.000000002204Highly InformativeDirect
Biological processCilium biogenesis/degradation0.00000009997Highly InformativeDirect
Biological processGrowth regulation0.000005623Highly InformativeDirect
Biological processVision0.00007506Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0.00000000024Least InformativeDirect
Cellular componentCytoplasm0.1211Least InformativeInherited
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.000000000001276Moderately InformativeDirect
Cellular componentCytoskeleton0.00000000005313Moderately InformativeDirect
Cellular componentGolgi apparatus0.00000249Moderately InformativeDirect
Cellular componentLysosome0.0000000005437InformativeDirect
Cellular componentSynapse0.00000001194InformativeDirect
Coding sequence diversityAlternative splicing0.0000000001336Least InformativeDirect
DiseaseTumor suppressor0.0006294Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0.00000000003439Moderately InformativeDirect
DomainZinc-finger0.0000000003752Moderately InformativeDirect
DomainSH2 domain0.000000000001419InformativeDirect
DomainSH3 domain0.00003762InformativeDirect
DomainSignal-anchor0.0001273InformativeDirect
DomainSH3-binding0.0004241InformativeDirect
Molecular functionMetal-binding0.000000007438Least InformativeDirect
Molecular functionZinc0.0000005144Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionLipid-binding0Moderately InformativeDirect
Post-translational modificationHydrolase0.00001151Least InformativeDirect
Post-translational modificationTransferase0.2323Least InformativeInherited
Post-translational modificationKinase0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.00001985Moderately InformativeDirect
Post-translational modificationGTPase activation0InformativeDirect
Post-translational modificationSerine/threonine-protein kinase0InformativeDirect
Post-translational modificationTransducer0InformativeDirect
Post-translational modificationProtein phosphatase0.0000000000003116InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0000000003813InformativeDirect
Post-translational modificationChromatin regulator0.0002676InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW 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) · UniProtKB KeyWords (KW) ]

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 25 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 25 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) · UniProtKB KeyWords (KW) · Internal database links ]