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 system0.7256Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system physiology0.08039Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system electrophysiology0.03723InformativeInherited
Phenotypic Abnormality (PA)Abnormal cardiac test0.0009446Highly 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 variant0.02208Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.09032Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.2198Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.6104Least InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.08466Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.145Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.1901Moderately InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.9318Moderately InformativeInherited
Worm Phenotype (WP)defecation variant0.01704InformativeInherited
Worm Phenotype (WP)cell stress response variant0.3236InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.8162InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000002137Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.0000005043Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.000001042Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.000006174Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.000009162Highly 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 organ0.79Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk0.994Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue1Least InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.06155Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)cardiovascular system0.8577InformativeInherited

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 cell0.0000004698InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.6588InformativeInherited
Plant ANatomical entity (PAN)parenchyma cell0.002369Highly InformativeInherited
Plant ANatomical entity (PAN)mesophyll1Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage0.000000111Moderately 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)Hydrolases0.000000000008767Least 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)0.00000001763Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.05314Moderately InformativeInherited
Enzyme Commission (EC)Acting on the CH-OH group of donors0.9777Moderately 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 kinase0.0000000641InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0.0000002316InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.0000002343InformativeDirect
Enzyme Commission (EC)Omega peptidases0.02465InformativeInherited
Enzyme Commission (EC)Acting on a peroxide as acceptor0.1234InformativeInherited
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 acceptor0.00000002404Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000005134Highly InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine phosphatase0.00002431Highly InformativeDirect
Enzyme Commission (EC)Diphosphotransferases0.005545Highly InformativeInherited
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited

Document: EC 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) ]

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 174 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 174 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) · Internal database links ]