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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 head0.4703Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.9866Least InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.1824Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.6206Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.6004InformativeInherited
Phenotypic Abnormality (PA)Sarcoma0.08223Highly 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 phenotype0.02459Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.1597Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4782Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.7986Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.194Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.5901Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5952Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.6061Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.005009InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology0.8119InformativeInherited
Mammalian Phenotype (MP)increased hamartoma incidence0.001438Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synapse morphology0.001862Highly 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 morphology variant0.000001915Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.000005075Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0001574Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.004196Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.006094Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.04681Least InformativeInherited
Worm Phenotype (WP)protein expression variant0.00000002116Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant0.0001239Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.000149Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.03318Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.07543Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.4015Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.4772Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.6959Moderately InformativeInherited
Worm Phenotype (WP)body wall muscle sarcomere morphology variant0.0000000588InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00002318InformativeDirect
Worm Phenotype (WP)defecation variant0.00002678InformativeDirect
Worm Phenotype (WP)mitochondria morphology variant0.00003185InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.0003444InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.0007048InformativeDirect
Worm Phenotype (WP)drug resistant0.0008915InformativeDirect
Worm Phenotype (WP)cell stress response variant0.001853InformativeInherited
Worm Phenotype (WP)pattern protein expression variant0.006382InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.01025InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.01524InformativeInherited
Worm Phenotype (WP)localized movement variant0.03834InformativeInherited
Worm Phenotype (WP)mechanosensation variant0.08817InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.1114InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.7171InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000001336Highly InformativeDirect
Worm Phenotype (WP)drug induced gene expression variant0.000000001642Highly InformativeDirect
Worm Phenotype (WP)response to injury variant0.0000001388Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.000000251Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.0000003435Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.0000008627Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.0000139Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.00004668Highly InformativeDirect
Worm Phenotype (WP)growth rate variant0.00005331Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0001956Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0002863Highly InformativeDirect
Worm Phenotype (WP)male mating defective0.0002935Highly 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)Acyltransferases0.000004564Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.002567Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0.9245Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00005858InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.2178InformativeInherited
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 kinase0.0006934Highly 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 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) · Internal database links ]