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0  structures 47  species 0  interactions 85  sequences 15  architectures

Family: Fibrinogen_BP (PF08017)

Summary: Fibrinogen binding protein

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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.

Fibrinogen binding protein Provide feedback

Proteins in this family bind to fibrinogen. Members of this family includes the fibrinogen receptor, FbsA, (Q8GIU3) which mediates platelet aggregation [1].

Literature references

  1. Pietrocola G, Schubert A, Visai L, Torti M, Fitzgerald JR, Foster TJ, Reinscheid DJ, Speziale P; , Blood 2004; [Epub ahead of print]: FbsA, a fibrinogen-binding protein from Streptococcus agalactiae, mediates platelet aggregation. PUBMED:15383464 EPMC:15383464


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR012969

This entry represents proteins that bind to fibrinogen. Fibrinogen is capable of binding to a wide number of endogenous proteins and cell receptors during haemostasis, including binding to platelets to promote their aggregation [PUBMED:15837518]. This entry represents the fibrinogen receptor FbsA (SWISSPROT) from the pathogen Streptococcus agalactiae, which is responsible for causing endocarditis in humans. FbsA is considered an important virulence factor that is capable of binding fibrinogen, through which it elicits platelet aggregation and adherence to the extracellular matrix. This enables the bacteria to invade the pulmonary epithelium, which may be a prerequisite for infection [PUBMED:15383464]. More information about Fibrinogen can be found at Protein of the Month: Fibrinogen [PUBMED:].

This entry also contains Eukaryotic translation initiation factor 4 gamma, which is a component of the protein complex eIF4F and is involved in the recognition of the mRNA cap, ATP-dependent unwinding of 5'-terminal secondary structure and recruitment of mRNA to the ribosome [PUBMED:12581158].

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 using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics 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
(4)
Full
(85)
Representative proteomes NCBI
(87)
Meta
(8)
RP15
(16)
RP35
(19)
RP55
(38)
RP75
(45)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

Format an alignment

  Seed
(4)
Full
(85)
Representative proteomes NCBI
(87)
Meta
(8)
RP15
(16)
RP35
(19)
RP55
(38)
RP75
(45)
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
(4)
Full
(85)
Representative proteomes NCBI
(87)
Meta
(8)
RP15
(16)
RP35
(19)
RP55
(38)
RP75
(45)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   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.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

Pfam alignments:

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_4323 (release 16.0)
Previous IDs: none
Type: Domain
Author: Mistry J
Number in seed: 4
Number in full: 85
Average length of the domain: 228.40 aa
Average identity of full alignment: 17 %
Average coverage of the sequence by the domain: 25.45 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 27.3 27.3
Trusted cut-off 27.4 27.8
Noise cut-off 26.9 27.2
Model length: 393
Family (HMM) version: 6
Download: download the raw HMM for this family

Species distribution

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