Summary: Fibronectin type II domain
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Fibronectin type II domain Edit Wikipedia article
|Fibronectin type II domain|
Collagen-binding type II domain of seminal plasma protein PDC-109.
|SCOPe||1pdc / SUPFAM|
Fibronectin is a multi-domain glycoprotein, found in a soluble form in plasma, and in an insoluble form in loose connective tissue and basement membranes, that binds cell surfaces and various compounds including collagen, fibrin, heparin, DNA, and actin. Fibronectins are involved in a number of important functions e.g., wound healing; cell adhesion; blood coagulation; cell differentiation and migration; maintenance of the cellular cytoskeleton; and tumour metastasis. The major part of the sequence of fibronectin consists of the repetition of three types of domains, which are called type I, II, and III.
Type II domain is approximately sixty amino acids long, contains four conserved cysteines involved in disulfide bonds and is part of the collagen-binding region of fibronectin. Type II domains occur two times in fibronectin. Type II domains have also been found in a range of proteins including blood coagulation factor XII; bovine seminal plasma proteins PDC-109 (BSP-A1/A2) and BSP-A3; cation-independent mannose-6-phosphate receptor; mannose receptor of macrophages; 180 Kd secretory phospholipase A2 receptor; DEC-205 receptor; 72 Kd and 92 Kd type IV collagenase (EC 22.214.171.124); and hepatocyte growth factor activator.
Fibronectin type II domain and Lipid bilayer interaction
Fibronectin type II domain is part of the extracellular portions of EphA2 receptor proteins. FN2 domain on EphA2 receptors bears positively-charged components, namely K441 and R443, which attract and almost exclusively bind to anionic lipids such as anionic membrane lipid phosphatidylglycerol. K441 and R443 together make up a membrane-binding motif that allows EphA2 receptors to attach to the cell membrane.
Human proteins containing this domain
- Wah DA, FernÃ¡ndez-Tornero C, Sanz L, Romero A, Calvete JJ (April 2002). "Sperm coating mechanism from the 1.8 A crystal structure of PDC-109-phosphorylcholine complex". Structure. 10 (4): 505â€“14. doi:10.1016/S0969-2126(02)00751-7. PMID 11937055.
- Dean DC, Bowlus CL, Bourgeois S (1987). "Cloning and analysis of the promotor region of the human fibronectin gene". Proc. Natl. Acad. Sci. U.S.A. 84 (7): 1876â€“1880. doi:10.1073/pnas.84.7.1876. PMC 304544. PMID 3031656.
- Skorstengaard K, Jensen MS, Sahl P, Petersen TE, Magnusson S (1986). "Complete primary structure of bovine plasma fibronectin". Eur. J. Biochem. 161 (2): 441â€“453. doi:10.1111/j.1432-1033.1986.tb10464.x. PMID 3780752.
- Pankov R, Yamada KM (2002). "Fibronectin at a glance". J Cell Sci. 115: 3861â€“3863. doi:10.1242/jcs.00059. PMID 12244123.
- Chretien M, Seidah NG, Manjunath P, Rochemont J, Sairam MR (1987). "Complete amino acid sequence of BSP-A3 from bovine seminal plasma. Homology to PDC-109 and to the collagen-binding domain of fibronectin". Biochem. J. 243 (1): 195â€“203. PMC 1147832. PMID 3606570.
- Kornfeld S (1992). "Structure and function of the mannose 6-phosphate/insulinlike growth factor II receptors". Annu. Rev. Biochem. 61 (1): 307â€“330. doi:10.1146/annurev.bi.61.070192.001515. PMID 1323236.
- Drickamer K, Taylor ME, Conary JT, Lennartz MR, Stahl PD (1990). "Primary structure of the mannose receptor contains multiple motifs resembling carbohydrate-recognition domains". J. Biol. Chem. 265 (21): 12156â€“12162. PMID 2373685.
- Lazdunski M, Barhanin J, Lambeau G, Ancian P (1994). "Cloning and expression of a membrane receptor for secretory phospholipases A2". J. Biol. Chem. 269 (3): 1575â€“1578. PMID 8294398.
- Jiang W, Swiggard WJ, Heufler C, Peng M, Mirza A, Steinman RM, Nussenzweig MC (1995). "The receptor DEC-205 expressed by dendritic cells and thymic epithelial cells is involved in antigen processing". Nature. 375 (6527): 151â€“155. doi:10.1038/375151a0. PMID 7753172.
- Grant GA, Collier IE, Wilhelm SM, Eisen AZ, Marmer BL, Seltzer JL, Kronberger A, Bauer EA, Goldberg GI, He CS (1988). "H-ras oncogene-transformed human bronchial epithelial cells (TBE-1) secrete a single metalloprotease capable of degrading basement membrane collagen". J. Biol. Chem. 263 (14): 6579â€“6587. PMID 2834383.
- Miyazawa K, Shimomura T, Kitamura A, Kondo J, Morimoto Y, Kitamura N (1993). "Molecular cloning and sequence analysis of the cDNA for a human serine protease responsible for activation of hepatocyte growth factor. Structural similarity of the protease precursor to blood coagulation factor XII". J. Biol. Chem. 268 (14): 10024â€“10028. PMID 7683665.
- Chavent M, Seiradake E, Jones EY, Sansom MS (February 2016). "Structures of the EphA2 Receptor at the Membrane: Role of Lipid Interactions". Structure. 24 (2): 337â€“47. doi:10.1016/j.str.2015.11.008. PMC 4744086. PMID 26724997.
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This tab holds annotation information from the InterPro database.
InterPro entry IPR000562
Fibronectin is a multi-domain glycoprotein, found in a soluble form in plasma, and in an insoluble form in loose connective tissue and basement membranes, that binds cell surfaces and various compounds including collagen, fibrin, heparin, DNA, and actin. Fibronectins are involved in a number of important functions e.g., wound healing; cell adhesion; blood coagulation; cell differentiation and migration; maintenance of the cellular cytoskeleton; and tumour metastasis [PUBMED:3031656].
The major part of the sequence of fibronectin consists of the repetition of three types of domains, which are called type I, II, and III (also called FN1, FN2 and FN3 respectively)[PUBMED:3780752]. In fibronectin the type II domain is duplicated. Type II domain is approximately forty residues long, contains four conserved cysteines involved in disulphide bonds and is part of the collagen-binding region of fibronectin. Type II domains have also been found in a range of proteins including blood coagulation factor XII; bovine seminal plasma proteins PDC-109 (BSP-A1/A2) and BSP-A3 [PUBMED:3606570]; cation-independent mannose-6-phosphate receptor [PUBMED:1323236]; mannose receptor of macrophages [PUBMED:2373685]; 180 Kd secretory phospholipase A2 receptor [PUBMED:8294398]. DEC-205 receptor [PUBMED:7753172]; 72 Kd and 92 Kd type IV collagenase (EC) [PUBMED:2834383]; and hepatocyte growth factor activator [PUBMED:7683665].
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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|Number in seed:||285|
|Number in full:||4775|
|Average length of the domain:||41.50 aa|
|Average identity of full alignment:||48 %|
|Average coverage of the sequence by the domain:||5.19 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||20|
|Download:||download the raw HMM for this family|
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The tree shows the occurrence of this domain across different species. More...
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For all of the domain matches in a full alignment, we count the number that are found on all sequences in the alignment. This total is shown in the purple box.
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We use the NCBI species tree to group organisms according to their taxonomy and this forms the structure of the displayed tree. Note that in some cases the trees are too large (have too many nodes) to allow us to build an interactive tree, but in most cases you can still view the tree in a plain text, non-interactive representation. Those species which are represented in the seed alignment for this domain are highlighted.
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There are 10 interactions for this family. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
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 fn2 domain has been found. There are 73 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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