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283  structures 1312  species 0  interactions 21314  sequences 749  architectures

Family: FG-GAP (PF01839)

Summary: FG-GAP repeat

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

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

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.

FG-GAP repeat Provide feedback

This family contains the extracellular repeat that is found in up to seven copies in alpha integrins. This repeat has been predicted to fold into a beta propeller structure [1]. The repeat is called the FG-GAP repeat after two conserved motifs in the repeat [1]. The FG-GAP repeats are found in the N terminus of integrin alpha chains, a region that has been shown to be important for ligand binding [2]. A putative Ca2+ binding motif is found in some of the repeats.

Literature references

  1. Springer TA; , Proc Natl Acad Sci U S A 1997;94:65-72.: Folding of the N-terminal, ligand-binding region of integrin alpha- subunits into a beta-propeller domain. PUBMED:8990162 EPMC:8990162

  2. Loftus JC, Smith JW, Ginsberg MH; , J Biol Chem 1994;269:25235-25238.: Integrin-mediated cell adhesion: the extracellular face. PUBMED:7929213 EPMC:7929213


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013517

This region contains the extracellular repeat that is found in up to seven copies in alpha integrins and related proteins. It forms a 7-fold repeat that adopts a beta-propeller structure [ PUBMED:7929213 ]. The repeat is called the FG-GAP repeat after two conserved motifs in the repeat [ PUBMED:7929213 ]. The FG-GAP repeats are found in the N terminus of integrin alpha chains, a region that has been shown to be important for ligand binding [ PUBMED:8990162 ]. A putative Ca2+ binding motif is found in some of the repeats. These repeats are found in multiple proteins from eukaryotes and bacteria and mediate diverse biological processes at both molecular and cellular levels, such as cell-cell interactions, host patogen recognition or innate immune responses.

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

This family is a member of clan Beta_propeller (CL0186), which has the following description:

This large clan contains proteins that contain beta propellers. These are composed of between 6 and 8 repeats. The individual repeats are composed of a four stranded sheet. The clan includes families such as WD40 Pfam:PF00400 where the individual repeats are modeled. The clan also includes families where the entire propeller is modeled such as Pfam:PF02239 usually because the individual repeats are not discernible. These proteins carry out a very wide diversity of functions including catalysis.

The clan contains the following 88 members:

ANAPC4_WD40 APMAP_N Arylesterase Arylsulfotran_2 Arylsulfotrans B_lectin BBS2_Mid Beta_propel Coatomer_WDAD CPSF_A CyRPA Cytochrom_D1 Dpp_8_9_N DPPIV_N DPPIV_rep DUF1513 DUF1668 DUF2415 DUF3748 DUF4221 DUF4933 DUF4934 DUF5046 DUF5050 DUF5122 DUF5128 DUF5711 DUF839 eIF2A FG-GAP FG-GAP_2 FG-GAP_3 Frtz Ge1_WD40 Glu_cyclase_2 Gmad1 GSDH Hyd_WA IKI3 Itfg2 Kelch_1 Kelch_2 Kelch_3 Kelch_4 Kelch_5 Kelch_6 Lactonase Ldl_recept_b LGFP Lgl_C LVIVD Me-amine-dh_H MgpC MRJP Nbas_N Neisseria_PilC NHL nos_propeller nos_propeller_2 Nucleoporin_N Nup160 PALB2_WD40 PD40 Pectate_lyase22 Peptidase_S9_N PHTB1_N Phytase-like PQQ PQQ_2 PQQ_3 RAG2 RCC1 RCC1_2 Reg_prop SBBP SBP56 SdiA-regulated SGL Str_synth TcdB_toxin_midN Tectonin TolB_like VID27 WD40 WD40_2 WD40_3 WD40_4 WD40_like

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
(180)
Full
(21314)
Representative proteomes UniProt
(50942)
RP15
(2107)
RP35
(6976)
RP55
(18793)
RP75
(27232)
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
(180)
Full
(21314)
Representative proteomes UniProt
(50942)
RP15
(2107)
RP35
(6976)
RP55
(18793)
RP75
(27232)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

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
(180)
Full
(21314)
Representative proteomes UniProt
(50942)
RP15
(2107)
RP35
(6976)
RP55
(18793)
RP75
(27232)
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: [1]
Previous IDs: none
Type: Repeat
Sequence Ontology: SO:0001068
Author: Bateman A
Number in seed: 180
Number in full: 21314
Average length of the domain: 37.90 aa
Average identity of full alignment: 37 %
Average coverage of the sequence by the domain: 9.03 %

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 22.1 22.1
Trusted cut-off 22.1 22.1
Noise cut-off 22.0 22.0
Model length: 35
Family (HMM) version: 25
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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Viruses Viruses Unclassified Unclassified
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 FG-GAP domain has been found. There are 283 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
A0A0G2JVZ6 View 3D Structure Click here
A0A0G2JVZ6 View 3D Structure Click here
A0A0G2JVZ6 View 3D Structure Click here
A0A0G2K1E2 View 3D Structure Click here
A0A0G2K1E2 View 3D Structure Click here
A0A0G2K470 View 3D Structure Click here
A0A0G2K470 View 3D Structure Click here
A0A0G2KGI2 View 3D Structure Click here
A0A0R4ICS1 View 3D Structure Click here
A0A0R4ICS1 View 3D Structure Click here
A0A0R4IGD8 View 3D Structure Click here
A0A0R4IGD8 View 3D Structure Click here
A0A0R4IJT2 View 3D Structure Click here
A0A0R4IJT2 View 3D Structure Click here
A0A1D6LA71 View 3D Structure Click here
A0A2R8QJL9 View 3D Structure Click here
A0A2R8QKS0 View 3D Structure Click here
A0A2R8QKS0 View 3D Structure Click here
A0A2R8RQ80 View 3D Structure Click here
A0A2R8RQ80 View 3D Structure Click here
A2ARA8 View 3D Structure Click here
A2ARA8 View 3D Structure Click here
A8WHQ8 View 3D Structure Click here
A8WHQ8 View 3D Structure Click here
B3DIZ6 View 3D Structure Click here
B3DIZ6 View 3D Structure Click here
B5DEG1 View 3D Structure Click here
B5DEG1 View 3D Structure Click here
B8A5K2 View 3D Structure Click here
B8A5K2 View 3D Structure Click here
B8JK39 View 3D Structure Click here
B8JK39 View 3D Structure Click here
B8JLK8 View 3D Structure Click here
B8JLK8 View 3D Structure Click here
D3ZAC0 View 3D Structure Click here
D3ZAC0 View 3D Structure Click here
D3ZMQ3 View 3D Structure Click here
D3ZMQ3 View 3D Structure Click here
D3ZN51 View 3D Structure Click here
D3ZN51 View 3D Structure Click here
D3ZQM3 View 3D Structure Click here
D3ZQM3 View 3D Structure Click here
D3ZW82 View 3D Structure Click here
D3ZWZ1 View 3D Structure Click here
D3ZWZ1 View 3D Structure Click here
E7F7L7 View 3D Structure Click here
E7F7L7 View 3D Structure Click here
E9Q6R1 View 3D Structure Click here
E9QDD7 View 3D Structure Click here
E9QDD7 View 3D Structure Click here
E9QHI5 View 3D Structure Click here
E9QHI5 View 3D Structure Click here
F1LP44 View 3D Structure Click here
F1LUU1 View 3D Structure Click here
F1LUU1 View 3D Structure Click here
F1Q8T4 View 3D Structure Click here
F1Q8T4 View 3D Structure Click here
F1QC06 View 3D Structure Click here
F1QC06 View 3D Structure Click here
F1QSJ9 View 3D Structure Click here
F1QSJ9 View 3D Structure Click here
F1QWI2 View 3D Structure Click here
F1QWI2 View 3D Structure Click here
F1R108 View 3D Structure Click here
F1R108 View 3D Structure Click here
F1R2R3 View 3D Structure Click here
F1R2R3 View 3D Structure Click here
F4IYM4 View 3D Structure Click here
M0R6T8 View 3D Structure Click here
M0R6T8 View 3D Structure Click here
O44386 View 3D Structure Click here
O44386 View 3D Structure Click here
O44386 View 3D Structure Click here
O70362 View 3D Structure Click here
O70362 View 3D Structure Click here
O70362 View 3D Structure Click here
O70362 View 3D Structure Click here
O75578 View 3D Structure Click here
O75578 View 3D Structure Click here
P05555 View 3D Structure Click here
P06756 View 3D Structure Click here
P06756 View 3D Structure Click here
P06756 View 3D Structure Click here
P08514 View 3D Structure Click here
P08514 View 3D Structure Click here
P08648 View 3D Structure Click here
P08648 View 3D Structure Click here
P11215 View 3D Structure Click here
P11215 View 3D Structure Click here
P11688 View 3D Structure Click here
P11688 View 3D Structure Click here
P12080 View 3D Structure Click here
P12080 View 3D Structure Click here
P13612 View 3D Structure Click here
P13612 View 3D Structure Click here
P17301 View 3D Structure Click here
P17301 View 3D Structure Click here
P18614 View 3D Structure Click here
P18614 View 3D Structure Click here
P20701 View 3D Structure Click here
P20701 View 3D Structure Click here
P20702 View 3D Structure Click here
P20702 View 3D Structure Click here
P23229 View 3D Structure Click here
P23229 View 3D Structure Click here
P24063 View 3D Structure Click here
P24063 View 3D Structure Click here
P26006 View 3D Structure Click here
P26006 View 3D Structure Click here
P34446 View 3D Structure Click here
P34446 View 3D Structure Click here
P34446 View 3D Structure Click here
P38570 View 3D Structure Click here
P43406 View 3D Structure Click here
P43406 View 3D Structure Click here
P43406 View 3D Structure Click here
P53708 View 3D Structure Click here
P53708 View 3D Structure Click here
P56199 View 3D Structure Click here
P56199 View 3D Structure Click here
P61622 View 3D Structure Click here
P80108 View 3D Structure Click here
P80108 View 3D Structure Click here
P80108 View 3D Structure Click here
Q00651 View 3D Structure Click here
Q00651 View 3D Structure Click here
Q03600 View 3D Structure Click here
Q13349 View 3D Structure Click here
Q13349 View 3D Structure Click here
Q13683 View 3D Structure Click here
Q13683 View 3D Structure Click here
Q13797 View 3D Structure Click here
Q13797 View 3D Structure Click here
Q24247 View 3D Structure Click here
Q24247 View 3D Structure Click here
Q3V0T4 View 3D Structure Click here
Q3V0T4 View 3D Structure Click here
Q3V3R4 View 3D Structure Click here
Q3V3R4 View 3D Structure Click here
Q5I2A9 View 3D Structure Click here
Q5I2A9 View 3D Structure Click here
Q60677 View 3D Structure Click here
Q60677 View 3D Structure Click here
Q61738 View 3D Structure Click here
Q61738 View 3D Structure Click here
Q61739 View 3D Structure Click here
Q61739 View 3D Structure Click here
Q62469 View 3D Structure Click here
Q62469 View 3D Structure Click here
Q62470 View 3D Structure Click here
Q62470 View 3D Structure Click here
Q63258 View 3D Structure Click here
Q63258 View 3D Structure Click here
Q86AV9 View 3D Structure Click here
Q86AV9 View 3D Structure Click here
Q8R2H5 View 3D Structure Click here
Q8R2H5 View 3D Structure Click here
Q8R2H5 View 3D Structure Click here
Q9QUM0 View 3D Structure Click here
Q9QUM0 View 3D Structure Click here
Q9QXH4 View 3D Structure Click here
Q9QXH4 View 3D Structure Click here
Q9QYE7 View 3D Structure Click here
Q9QYE7 View 3D Structure Click here
Q9UKX5 View 3D Structure Click here
Q9UKX5 View 3D Structure Click here
Q9V7A4 View 3D Structure Click here
Q9V7A4 View 3D Structure Click here
Q9V7A4 View 3D Structure Click here
Q9W1M8 View 3D Structure Click here
Q9W1M8 View 3D Structure Click here
Q9W1M8 View 3D Structure Click here
X1WCW9 View 3D Structure Click here
X1WCW9 View 3D Structure Click here