SUPERFAMILY 1.75 HMM library and genome assignments server

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EF-hand superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   EF Hand-like [ 47472] (4)
Superfamily:   EF-hand [ 47473] (11)
Families:   Calbindin D9K [ 47474]
  S100 proteins [ 47478]
  Polcalcin [ 89048] (3)
  Osteonectin [ 47489]
  Parvalbumin [ 47492] (2)
  Calmodulin-like [ 47502] (23)
  Eps15 homology domain (EH domain) [ 47543] (3)
  Cbp40 (plasmodial specific CaII-binding protein LAV1-2) [ 81758]
  Penta-EF-hand proteins [ 63550] (6)
  EF-hand modules in multidomain proteins [ 47547] (8)
  p25-alpha [ 140538] (2)


Superfamily statistics
Genomes (1,144) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 70,336 206,497 217
Proteins 62,203 182,476 215


Functional annotation
General category General
Detailed category General

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)Acting on peptide bonds (peptide hydrolases)0.00000996Least InformativeDirect
Enzyme Commission (EC)Isomerases0.8525Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Cysteine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0.0001396Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0.9116Moderately InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.1217Moderately InformativeInherited
Enzyme Commission (EC)Phosphoinositide phospholipase C0InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000000521InformativeDirect
Enzyme Commission (EC)Phosphoprotein phosphatase0.00004132InformativeDirect
Enzyme Commission (EC)With a oxygen as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Diacylglycerol kinase0Highly InformativeDirect
Enzyme Commission (EC)With a quinone or similar compound as acceptor0.000000003307Highly InformativeDirect
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited

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 system0.606Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system physiology0.09876Moderately InformativeInherited
Phenotypic Abnormality (PA)Arrhythmia0.003269InformativeInherited
Phenotypic Abnormality (PA)Atrial fibrillation0.000985Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.02301Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.09751Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.1797Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.6244Least InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.1064Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.1525Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.1948Moderately InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.9313Moderately InformativeInherited
Worm Phenotype (WP)defecation variant0.01721InformativeInherited
Worm Phenotype (WP)cell stress response variant0.3219InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.8014InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000002267Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.0000005108Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.000001095Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.000006346Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.000009163Highly InformativeDirect

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)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)cavitated compound organ0.7933Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk0.9867Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue1Least InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.1091Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)cardiovascular system0.8144InformativeInherited

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 cell0.000000464InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.6586InformativeInherited
Plant ANatomical entity (PAN)parenchyma cell0.002358Highly InformativeInherited
Plant ANatomical entity (PAN)mesophyll1Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage0.00000011Moderately 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)Hydrolases0.00000000001079Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.00000004978Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.055Moderately InformativeInherited
Enzyme Commission (EC)Acting on the CH-OH group of donors0.9771Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)Cysteine endopeptidases0InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.000000062InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0.0000002282InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.0000002744InformativeDirect
Enzyme Commission (EC)Omega peptidases0.05136InformativeInherited
Enzyme Commission (EC)Acting on a peroxide as acceptor0.1216InformativeInherited
Enzyme Commission (EC)Serine endopeptidases1InformativeInherited
Enzyme Commission (EC)Diacylglycerol kinase (ATP)0Highly InformativeDirect
Enzyme Commission (EC)Phosphoinositide phospholipase C0Highly InformativeDirect
Enzyme Commission (EC)With a quinone or similar compound as acceptor0.00000002382Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000005742Highly InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine phosphatase0.00002414Highly InformativeDirect
Enzyme Commission (EC)Diphosphotransferases0.005535Highly InformativeInherited
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.9486Least InformativeInherited
Biological processLipid metabolism0.00000000000001531Moderately InformativeDirect
Biological processApoptosis0.0000000005206Moderately InformativeDirect
Biological processIon transport0.00004945Moderately InformativeDirect
Biological processCell cycle0.2427Moderately InformativeInherited
Biological processEndocytosis0InformativeDirect
Biological processLipid degradation0InformativeDirect
Biological processWnt signaling pathway0.00000005099InformativeDirect
Biological processInflammatory response0.000006838InformativeDirect
Biological processMitosis0.00001433InformativeDirect
Biological processSensory transduction0.00003215InformativeDirect
Biological processAngiogenesis0.0005977InformativeDirect
Biological processCalcium transport0Highly InformativeDirect
Biological processVision0.00000000000003795Highly InformativeDirect
Biological processPotassium transport0.0000000000008637Highly InformativeDirect
Biological processLuminescence0.00000002987Highly InformativeDirect
Biological processAntiport0.00000006285Highly InformativeDirect
Biological processFertilization0.00000233Highly InformativeDirect
Biological processCilium biogenesis/degradation0.0008212Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentMitochondrion0.0000000000004106Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.0000001574Moderately InformativeDirect
Cellular componentSecreted0.2901Moderately InformativeInherited
Cellular componentMitochondrion outer membrane0InformativeDirect
Cellular componentExtracellular matrix0.000000000000005196InformativeDirect
Cellular componentVacuole0.0000004404InformativeDirect
Cellular componentMitochondrion inner membrane0.0002351InformativeDirect
Cellular componentMicrotubule0.000445InformativeDirect
Cellular componentSarcoplasmic reticulum0Highly InformativeDirect
Cellular componentLipid droplet0.0000000001795Highly InformativeDirect
Cellular componentBasement membrane0.00001177Highly InformativeDirect
Cellular componentCoated pit0.0003727Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000001666Least InformativeDirect
DiseaseAllergen0Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil0.000009351Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationKinase0.002237Moderately InformativeInherited
Post-translational modificationProtease0.06917Moderately InformativeInherited
Post-translational modificationOxidoreductase1Moderately InformativeInherited
Post-translational modificationActin-binding0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationSerine/threonine-protein kinase0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationTransducer0InformativeDirect
Post-translational modificationCalmodulin-binding0.000000000004299InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0000000007962InformativeDirect
Post-translational modificationGTPase activation0.0001185InformativeDirect
Post-translational modificationMuscle protein0Highly InformativeDirect
Post-translational modificationMyosin0Highly InformativeDirect
Post-translational modificationCalcium channel0.0000000000005647Highly InformativeDirect
Post-translational modificationPeroxidase0.000000002062Highly InformativeDirect
Post-translational modificationActin capping0.000001388Highly InformativeDirect
Post-translational modificationMetalloenzyme inhibitor0.000007401Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0.000000000001112Least InformativeDirect
Post-translational modificationGlycoprotein1Least InformativeInherited
Post-translational modificationMethylation0.000008505Moderately InformativeDirect
Post-translational modificationMyristate0InformativeDirect
Post-translational modificationProteoglycan0.000007711InformativeDirect
Post-translational modificationS-nitrosylation0.0004401InformativeDirect
Post-translational modificationHeparan sulfate0.000000000000007632Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · 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 104 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 EF-hand 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 104 hidden Markov models representing the EF-hand 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 · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · 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 ]