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428  structures 1464  species 0  interactions 10997  sequences 511  architectures

Family: EF-hand_1 (PF00036)

Summary: EF hand

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "EF hand". More...

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

EF hand Provide feedback

The EF-hands can be divided into two classes: signalling proteins and buffering/transport proteins. The first group is the largest and includes the most well-known members of the family such as calmodulin, troponin C and S100B. These proteins typically undergo a calcium-dependent conformational change which opens a target binding site. The latter group is represented by calbindin D9k and do not undergo calcium dependent conformational changes.

Literature references

  1. Nakayama S, Moncrief ND, Kretsinger RH; , J Mol Evol 1992;34:416-448.: Evolution of EF-hand calcium-modulated proteins. II. Domains of several subfamilies have diverse evolutionary histories. PUBMED:1602495 EPMC:1602495

  2. Hogue CW, MacManus JP, Banville D, Szabo AG; , J Biol Chem 1992;267:13340-13347.: Comparison of terbium (III) luminescence enhancement in mutants of EF hand calcium binding proteins. PUBMED:1618836 EPMC:1618836

  3. Bairoch A, Cox JA; , FEBS Lett 1990;269:454-456.: EF-hand motifs in inositol phospholipid-specific phospholipase C. PUBMED:2401372 EPMC:2401372

  4. Finn BE, Forsen S; , Structure 1995;3:7-11.: The evolving model of calmodulin structure, function and activation. PUBMED:7743133 EPMC:7743133


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002048

Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand). Ca2 binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers [ PUBMED:9228939 , PUBMED:8848832 , PUBMED:7553064 , PUBMED:7656053 , PUBMED:10591109 ].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(564)
Full
(10997)
Representative proteomes UniProt
(25296)
RP15
(2084)
RP35
(4893)
RP55
(9237)
RP75
(11984)
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PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(564)
Full
(10997)
Representative proteomes UniProt
(25296)
RP15
(2084)
RP35
(4893)
RP55
(9237)
RP75
(11984)
Alignment:
Format:
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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(564)
Full
(10997)
Representative proteomes UniProt
(25296)
RP15
(2084)
RP35
(4893)
RP55
(9237)
RP75
(11984)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Prosite
Previous IDs: efhand; EF_hand_1;
Type: Domain
Sequence Ontology: SO:0000417
Author: Eddy SR
Number in seed: 564
Number in full: 10997
Average length of the domain: 28.70 aa
Average identity of full alignment: 30 %
Average coverage of the sequence by the domain: 8.92 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 25.4 25.4
Trusted cut-off 25.4 25.4
Noise cut-off 25.3 25.3
Model length: 29
Family (HMM) version: 34
Download: download the raw HMM for this family

Species distribution

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Selections

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the EF-hand_1 domain has been found. There are 428 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0P0W2R0 View 3D Structure Click here
A0A0R0FHA0 View 3D Structure Click here
A0A0R0FT06 View 3D Structure Click here
A0A0R0HAR3 View 3D Structure Click here
A0A0R0IB03 View 3D Structure Click here
A0A0R0IFV5 View 3D Structure Click here
A0A0R0INJ2 View 3D Structure Click here
A0A0R0KC76 View 3D Structure Click here
A0A0R0L5Y8 View 3D Structure Click here
A0A0R4IKJ0 View 3D Structure Click here
A0A0R4IU57 View 3D Structure Click here
A0A0R4IVA0 View 3D Structure Click here
A0A1D6EAB0 View 3D Structure Click here
A0A1D6F4L6 View 3D Structure Click here
A0A1D6GS18 View 3D Structure Click here
A0A1D6I8J3 View 3D Structure Click here
A0A1D6IWK6 View 3D Structure Click here
A0A1D6JXV0 View 3D Structure Click here
A0A1D6KIJ4 View 3D Structure Click here
A0A1D6L6Z5 View 3D Structure Click here
A0A1D6NAQ2 View 3D Structure Click here
A0A1D6P7F3 View 3D Structure Click here
A0A1D6PRV3 View 3D Structure Click here
A0A1D6QBY9 View 3D Structure Click here
A0A2R8QGT1 View 3D Structure Click here
A0A494BAW1 View 3D Structure Click here
A2AQ92 View 3D Structure Click here
A2AQ92 View 3D Structure Click here
A3KH13 View 3D Structure Click here
A3KPW8 View 3D Structure Click here
A4HT58 View 3D Structure Click here
A4HVP4 View 3D Structure Click here
A4IA04 View 3D Structure Click here
A4IBS7 View 3D Structure Click here
A8DWJ8 View 3D Structure Click here
B4G1S0 View 3D Structure Click here
B6SL16 View 3D Structure Click here
B6T4U8 View 3D Structure Click here
B6TYU9 View 3D Structure Click here
C6TFQ5 View 3D Structure Click here
D3ZCI9 View 3D Structure Click here
D3ZDM0 View 3D Structure Click here
D3ZY59 View 3D Structure Click here
D4A9P6 View 3D Structure Click here
E7FG54 View 3D Structure Click here
E9QG86 View 3D Structure Click here
E9QJF8 View 3D Structure Click here
F1LYQ0 View 3D Structure Click here
F1QVF2 View 3D Structure Click here
F6NI63 View 3D Structure Click here
G5EGM2 View 3D Structure Click here
I1JSB3 View 3D Structure Click here
I1KF65 View 3D Structure Click here
I1KY83 View 3D Structure Click here
I1LXD2 View 3D Structure Click here
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I1MRS4 View 3D Structure Click here
I1MVY3 View 3D Structure Click here
K7KDL8 View 3D Structure Click here
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K7KIG8 View 3D Structure Click here
K7KN75 View 3D Structure Click here
K7KTG4 View 3D Structure Click here
K7L567 View 3D Structure Click here
K7M068 View 3D Structure Click here
K7MN50 View 3D Structure Click here
M0R793 View 3D Structure Click here
O00897 View 3D Structure Click here
O14008 View 3D Structure Click here
O14829 View 3D Structure Click here
O14830 View 3D Structure Click here
O16343 View 3D Structure Click here
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O22845 View 3D Structure Click here
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O23184 View 3D Structure Click here
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O23320 View 3D Structure Click here
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O35385 View 3D Structure Click here
O43745 View 3D Structure Click here
O64866 View 3D Structure Click here
O74435 View 3D Structure Click here
O74435 View 3D Structure Click here
O76038 View 3D Structure Click here
O76670 View 3D Structure Click here
O82659 View 3D Structure Click here
O88751 View 3D Structure Click here
O88751 View 3D Structure Click here
O88751 View 3D Structure Click here
O93409 View 3D Structure Click here
O94455 View 3D Structure Click here
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P02599 View 3D Structure Click here
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P02634 View 3D Structure Click here
P04271 View 3D Structure Click here
P04630 View 3D Structure Click here
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P05095 View 3D Structure Click here
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P06704 View 3D Structure Click here
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P07171 View 3D Structure Click here
P08733 View 3D Structure Click here
P09402 View 3D Structure Click here
P0DH96 View 3D Structure Click here
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P0DH96 View 3D Structure Click here
P0DH96 View 3D Structure Click here
P10916 View 3D Structure Click here
P12658 View 3D Structure Click here
P12815 View 3D Structure Click here
P13796 View 3D Structure Click here
P13832 View 3D Structure Click here
P16086 View 3D Structure Click here
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P25070 View 3D Structure Click here
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P27482 View 3D Structure Click here
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P28470 View 3D Structure Click here
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P28583 View 3D Structure Click here
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P29377 View 3D Structure Click here
P30187 View 3D Structure Click here
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P31949 View 3D Structure Click here
P35332 View 3D Structure Click here
P35467 View 3D Structure Click here
P36608 View 3D Structure Click here
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P37236 View 3D Structure Click here
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P40977 View 3D Structure Click here
P41044 View 3D Structure Click here
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P47728 View 3D Structure Click here
P47948 View 3D Structure Click here
P48451 View 3D Structure Click here
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P49101 View 3D Structure Click here
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P49258 View 3D Structure Click here
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P50114 View 3D Structure Click here
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P51667 View 3D Structure Click here
P51879 View 3D Structure Click here
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P63100 View 3D Structure Click here
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P84076 View 3D Structure Click here
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P91423 View 3D Structure Click here
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P97816 View 3D Structure Click here
Q02045 View 3D Structure Click here
Q06389 View 3D Structure Click here
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Q08331 View 3D Structure Click here
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Q0DZK7 View 3D Structure Click here
Q0JBY6 View 3D Structure Click here
Q11083 View 3D Structure Click here
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Q14651 View 3D Structure Click here
Q18136 View 3D Structure Click here
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Q18874 View 3D Structure Click here
Q1PFH8 View 3D Structure Click here
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Q20358 View 3D Structure Click here
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Q21201 View 3D Structure Click here
Q24JV6 View 3D Structure Click here
Q38868 View 3D Structure Click here
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Q39890 View 3D Structure Click here
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Q42479 View 3D Structure Click here
Q4CTH2 View 3D Structure Click here
Q4DU33 View 3D Structure Click here
Q4E3T4 View 3D Structure Click here
Q4E4S1 View 3D Structure Click here
Q4E591 View 3D Structure Click here
Q4V8A1 View 3D Structure Click here
Q52K82 View 3D Structure Click here
Q53A16 View 3D Structure Click here
Q54RB9 View 3D Structure Click here
Q5TZ35 View 3D Structure Click here
Q5XJJ5 View 3D Structure Click here
Q62082 View 3D Structure Click here
Q67J26 View 3D Structure Click here
Q67J27 View 3D Structure Click here
Q6B345 View 3D Structure Click here
Q6DN52 View 3D Structure Click here
Q6NYK0 View 3D Structure Click here
Q6P005 View 3D Structure Click here
Q6PC44 View 3D Structure Click here
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Q6YYX3 View 3D Structure Click here
Q6YYX3 View 3D Structure Click here
Q6YZJ1 View 3D Structure Click here
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Q7ZVA4 View 3D Structure Click here
Q804C0 View 3D Structure Click here
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Q84VG0 View 3D Structure Click here
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Q8BGZ1 View 3D Structure Click here
Q8BNY6 View 3D Structure Click here
Q8CIY2 View 3D Structure Click here
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Q8UUY0 View 3D Structure Click here
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Q8VHC5 View 3D Structure Click here
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Q94288 View 3D Structure Click here
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Q94AZ4 View 3D Structure Click here
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Q99653 View 3D Structure Click here
Q9D3N2 View 3D Structure Click here
Q9D9C0 View 3D Structure Click here
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Q9ES45 View 3D Structure Click here
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Q9FDX6 View 3D Structure Click here
Q9FI19 View 3D Structure Click here
Q9FI19 View 3D Structure Click here
Q9JLK4 View 3D Structure Click here
Q9LF55 View 3D Structure Click here
Q9LF55 View 3D Structure Click here
Q9LPK5 View 3D Structure Click here
Q9LX26 View 3D Structure Click here
Q9M101 View 3D Structure Click here
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