SUPERFAMILY 1.75 HMM library and genome assignments server

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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 head0.282Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.8948Least InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.211Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.4272Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.5753InformativeInherited
Phenotypic Abnormality (PA)Sarcoma0.08001Highly 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 coagulation0.005008InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology0.8118InformativeInherited
Mammalian Phenotype (MP)increased hamartoma incidence0.001439Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synapse morphology0.001862Highly InformativeInherited
Mammalian Phenotype (MP)increased skin tumor incidence0.002828Highly 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 morphology variant0.000002191Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.000005183Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0001662Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.001728Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.006639Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.04655Least InformativeInherited
Worm Phenotype (WP)cell development variant0.08733Least InformativeInherited
Worm Phenotype (WP)protein expression variant0.00000002123Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant0.0001345Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.0001726Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.03521Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.0957Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.2705Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.4498Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.5558Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6198Moderately InformativeInherited
Worm Phenotype (WP)body wall muscle sarcomere morphology variant0.00000005918InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00002281InformativeDirect
Worm Phenotype (WP)mitochondria morphology variant0.00003277InformativeDirect
Worm Phenotype (WP)defecation variant0.00004552InformativeDirect
Worm Phenotype (WP)growth rate variant0.00005227InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.0001142InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.0002531InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.0007424InformativeDirect
Worm Phenotype (WP)neurite morphology variant0.0008811InformativeDirect
Worm Phenotype (WP)drug resistant0.0008918InformativeDirect
Worm Phenotype (WP)cell stress response variant0.001879InformativeInherited
Worm Phenotype (WP)pattern protein expression variant0.006209InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.009771InformativeInherited
Worm Phenotype (WP)copulation variant0.01191InformativeInherited
Worm Phenotype (WP)sexually dimorphic behavior variant0.0122InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.0149InformativeInherited
Worm Phenotype (WP)localized movement variant0.05155InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.1317InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.7193InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.00000000132Highly InformativeDirect
Worm Phenotype (WP)drug induced gene expression variant0.00000000163Highly InformativeDirect
Worm Phenotype (WP)response to injury variant0.0000001294Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.0000002327Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.000000339Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.000001132Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.00001299Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.00004627Highly InformativeDirect
Worm Phenotype (WP)male mating defective0.00004721Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0002819Highly InformativeDirect
Worm Phenotype (WP)nose movement variant0.1036Highly 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 cell0.00007221InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.00003936Moderately 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)Aminoacyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00257Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0.917Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00005814InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.2144InformativeInherited
Enzyme Commission (EC)Carboxy-lyases0.4943InformativeInherited
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 kinase0.0006333Highly 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 ]