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452  structures 256  species 0  interactions 5038  sequences 71  architectures

Family: S_100 (PF01023)

Summary: S-100/ICaBP type calcium binding domain

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 "S-100 protein". More...

S-100 protein Edit Wikipedia article

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

This is the Wikipedia entry entitled "S100 protein". More...

S100 protein Edit Wikipedia article

S-100 protein is an acidic protein antigen present on certain cells and useful as a marker in anatomic pathology.

The name is derived from the fact that the protein is 100% Soluble in ammonium sulfate at neutral pH. The protein binds calcium and is structurally similar to calmodulin. The function of S-100 is unknown.

S-100 is normally present in cells derived from the neural crest (Schwann cells, melanocytes, and glial cells), chondrocytes, adipocytes, myoepithelial cells, macrophages, Langerhans cells, and dendritic cells. It may be present in some breast epithelial cells. S-100 is useful as a marker for certain tumors. It can be found in melanomas, 50% of malignant peripheral nerve sheath tumors, and clear cell sarcomas.

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.

S-100/ICaBP type calcium binding domain Provide feedback

The S-100 domain is a subfamily of the EF-hand calcium binding proteins.

Literature references

  1. Sastry M, Ketchem RR, Crescenzi O, Weber C, Lubienski MJ, Hidaka H, Chazin WJ; , Structure 1998;6:223-231.: The three-dimensional structure of Ca(2+)-bound calcyclin: implications for Ca(2+)-signal transduction by S100 proteins. PUBMED:9519412 EPMC:9519412


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013787

The calcium-binding domain found in S100 and CaBP-9k proteins is a subfamily of the EF-hand calcium-binding domain [ PUBMED:15284904 ]. S100s are small dimeric acidic calcium and zinc-binding proteins abundant in the brain, with S100B playing an important role in modulating the proliferation and differentiation of neurons and glia cells [ PUBMED:15006498 ]. S100 proteins have two different types of calcium-binding sites: a low affinity one with a special structure, and a 'normal' EF-hand type high-affinity site.

Calbindin-D9k (CaBP-9k) also belong to this family of proteins, but it does not form dimers. CaBP-9k is a cytosolic protein expressed in a variety of tissues. Although its precise function is unknown, it appears to be under the control of the steroid hormones oestrogen and progesterone in the female reproductive system [ PUBMED:16288660 ]. In the intestine, CaBP-9k may be involved in calcium absorption by mediating intracellular diffusion [ PUBMED:12520541 ].

This entry represents a subdomain of the calcium-binding domain found in S100, CaBP-9k, and related proteins.

Domain organisation

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

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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
(161)
Full
(5038)
Representative proteomes UniProt
(8737)
RP15
(309)
RP35
(1318)
RP55
(3560)
RP75
(5082)
Jalview View  View  View  View  View  View  View 
HTML View             
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
(161)
Full
(5038)
Representative proteomes UniProt
(8737)
RP15
(309)
RP35
(1318)
RP55
(3560)
RP75
(5082)
Alignment:
Format:
Order:
Sequence:
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Download options

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
(161)
Full
(5038)
Representative proteomes UniProt
(8737)
RP15
(309)
RP35
(1318)
RP55
(3560)
RP75
(5082)
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: Pfam-B_242 (release 3.0)
Previous IDs: S_100_domain;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A
Number in seed: 161
Number in full: 5038
Average length of the domain: 43.8 aa
Average identity of full alignment: 36 %
Average coverage of the sequence by the domain: 21.07 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.0 22.0
Trusted cut-off 22.0 22.0
Noise cut-off 21.9 21.9
Model length: 45
Family (HMM) version: 22
Download: download the raw HMM for this family

Species distribution

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Viroids Viroids Unclassified sequence Unclassified sequence

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 S_100 domain has been found. There are 452 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
A0A0B4J1F9 View 3D Structure Click here
A0A0G2K1V9 View 3D Structure Click here
A0A0G2K862 View 3D Structure Click here
A0A0R4IVA0 View 3D Structure Click here
A3FKT8 View 3D Structure Click here
A3KH13 View 3D Structure Click here
A5WW28 View 3D Structure Click here
A5WW32 View 3D Structure Click here
A6QP92 View 3D Structure Click here
A7K6Y8 View 3D Structure Click here
A7K6Y9 View 3D Structure Click here
B0BMX3 View 3D Structure Click here
B9EJL3 View 3D Structure Click here
D3YUU6 View 3D Structure Click here
D3ZBF6 View 3D Structure Click here
D3ZDM0 View 3D Structure Click here
D3ZEJ4 View 3D Structure Click here
D3ZRF0 View 3D Structure Click here
D3ZSW4 View 3D Structure Click here
D3ZTB5 View 3D Structure Click here
E7FGU0 View 3D Structure Click here
F1LX90 View 3D Structure Click here
F1LYQ0 View 3D Structure Click here
F1M053 View 3D Structure Click here
F1R758 View 3D Structure Click here
G3UWB8 View 3D Structure Click here
J3QMC7 View 3D Structure Click here
J3QPE5 View 3D Structure Click here
M0RBW0 View 3D Structure Click here
O77691 View 3D Structure Click here
O77791 View 3D Structure Click here
P02632 View 3D Structure Click here
P02633 View 3D Structure Click here
P02634 View 3D Structure Click here
P02638 View 3D Structure Click here
P02639 View 3D Structure Click here
P04163 View 3D Structure Click here
P04271 View 3D Structure Click here
P04631 View 3D Structure Click here
P05109 View 3D Structure Click here