Sema domain

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PBB Protein SEMA3A image.jpg
Sema domain, immunoglobulin domain (Ig), short basic domain
Identifiers
SymbolSema
Pfam PF01403
InterPro IPR001627
PROSITE PDOC51004
SCOP2 1olz / SCOPe / SUPFAM
Membranome 71

The Sema domain is a structural domain of semaphorins, which are a large family of secreted and transmembrane proteins, some of which function as repellent signals during axon guidance. Sema domains also occur in the hepatocyte growth factor receptor (Uniprot: P08581 ), Plexin-A3 [1] (Uniprot: P51805 ) and in viral proteins.

CD100 (also called SEMA4D) is associated with PTPase and serine kinase activity. CD100 increases PMA, CD3 and CD2 induced T cell proliferation, increases CD45 induced T cell adhesion, induces B cell homotypic adhesion and down-regulates B cell expression of CD23.

The Sema domain is characterised by a conserved set of cysteine residues, which form four disulfide bonds to stabilise the structure. The Sema domain fold is a variation of the beta propeller topology, with seven blades radially arranged around a central axis. Each blade contains a four- stranded (strands A to D) antiparallel beta sheet. The inner strand of each blade (A) lines the channel at the centre of the propeller, with strands B and C of the same repeat radiating outward, and strand D of the next repeat forming the outer edge of the blade. The large size of the Sema domain is not due to a single inserted domain but results from the presence of additional secondary structure elements inserted in most of the blades. The Sema domain uses a 'loop and hook' system to close the circle between the first and the last blades. The blades are constructed sequentially with an N-terminal beta- strand closing the circle by providing the outermost strand (D) of the seventh (C-terminal) blade. The beta-propeller is further stabilized by an extension of the N-terminus, providing an additional, fifth beta-strand on the outer edge of blade 6. [2] [3] [4]

Human proteins containing this domain

MET; MST1R; PLXNA1; PLXNA2; PLXNA3; PLXNA4; PLXNB1; PLXNB2; PLXNB3; PLXND1; SEMA3A; SEMA3B; SEMA3C; SEMA3D; SEMA3E; SEMA3F; SEMA3G; SEMA4A; SEMA4B; SEMA4C; SEMA4D; SEMA4F; SEMA4G; SEMA5A; SEMA5B; SEMA6A; SEMA6B; SEMA6C; SEMA6D; SEMA7A;

Related Research Articles

Optic chiasm Part of the brain where the optic nerves cross

The optic chiasm, or optic chiasma, is the part of the brain where the optic nerves cross. It is located at the bottom of the brain immediately inferior to the hypothalamus. The optic chiasm is found in all vertebrates, although in cyclostomes, it is located within the brain.

Semaphorins are a class of secreted and membrane proteins that were originally identified as axonal growth cone guidance molecules. They primarily act as short-range inhibitory signals and signal through multimeric receptor complexes. Semaphorins are usually cues to deflect axons from inappropriate regions, especially important in the neural system development. The major class of proteins that act as their receptors are called plexins, with neuropilins as their co-receptors in many cases. The main receptors for semaphorins are plexins, which have established roles in regulating Rho-family GTPases. Recent work shows that plexins can also influence R-Ras, which, in turn, can regulate integrins. Such regulation is probably a common feature of semaphorin signalling and contributes substantially to our understanding of semaphorin biology.

Neuropilin

Neuropilin is a protein receptor active in neurons.

Plexin

A plexin is a protein which acts as a receptor for semaphorin family signaling proteins. It is classically known for its expression on the surface of axon growth cones and involvement in signal transduction to steer axon growth away from the source of semaphorin. Plexin also has implications in development of other body systems by activating GTPase enzymes to induce a number of intracellular biochemical changes leading to a variety of downstream effects.

Neuropilin 1

Neuropilin-1 is a protein that in humans is encoded by the NRP1 gene. In humans, the neuropilin 1 gene is located at 10p11.22. This is one of two human neuropilins.

SEMA3A

Semaphorin-3A is a protein that in humans is encoded by the SEMA3A gene.

SEMA4D

Semaphorin-4D (SEMA4D) also known as Cluster of Differentiation 100 (CD100), is a protein of the semaphorin family that in humans is encoded by the SEMA4D gene.

PLXNB1

Plexin B1 is a protein of the plexin family that in humans is encoded by the PLXNB1 gene.

SEMA3F

Semaphorin-3F is a protein that in humans is encoded by the SEMA3F gene.

Rnd1

Rnd1 is a small signaling G protein, and is a member of the Rnd subgroup of the Rho family of GTPases. It is encoded by the gene RND1.

SEMA3C

Semaphorin-3C is a protein that in humans is encoded by the SEMA3C gene.

Plexin A1

Plexin-A1 is a protein that in humans is encoded by the PLXNA1 gene.

PLXNB2

Plexin-B2 is a protein that in humans is encoded by the PLXNB2 gene.

SEMA7A Protein-coding gene in the species Homo sapiens

Semaphorin 7A, GPI membrane anchor (SEMA7A) also known as CD108, is a human gene.

PLXNA2

Plexin-A2 is a protein that in humans is coded by the PLXNA2 gene.

PLXNA4A

Plexin-A4 is a protein that in humans is encoded by the PLXNA4 gene.

SEMA4G

Semaphorin-4G is a protein that in humans is encoded by the SEMA4G gene.

Collapsin response mediator protein family or CRMP family consists of five intracellular phosphoproteins of similar molecular size and high (50–70%) amino acid sequence identity. CRMPs are predominantly expressed in the nervous system during development and play important roles in axon formation from neurites and in growth cone guidance and collapse through their interactions with microtubules. Cleaved forms of CRMPs have also been linked to neuron degeneration after trauma induced injury.

Tropic cues involved in growth cone guidance

The growth cone is a highly dynamic structure of the developing neuron, changing directionality in response to different secreted and contact-dependent guidance cues; it navigates through the developing nervous system in search of its target. The migration of the growth cone is mediated through the interaction of numerous trophic and tropic factors; netrins, slits, ephrins and semaphorins are four well-studied tropic cues (Fig.1). The growth cone is capable of modifying its sensitivity to these guidance molecules as it migrates to its target; this sensitivity regulation is an important theme seen throughout development.

Semaphorin 3E

Semaphorin 3E is a protein that in humans is encoded by the SEMA3E gene.

References

  1. Winberg ML, Noordermeer JN, Tamagnone L, Comoglio PM, Spriggs MK, Tessier-Lavigne M, Goodman CS (December 1998). "Plexin A is a neuronal semaphorin receptor that controls axon guidance". Cell. 95 (7): 903–16. doi: 10.1016/S0092-8674(00)81715-8 . PMID   9875845. S2CID   14703056.
  2. Antipenko A, Himanen JP, van Leyen K, Nardi-Dei V, Lesniak J, Barton WA, Rajashankar KR, Lu M, Hoemme C, Püschel AW, Nikolov DB (August 2003). "Structure of the semaphorin-3A receptor binding module". Neuron. 39 (4): 589–98. doi: 10.1016/S0896-6273(03)00502-6 . PMID   12925274. S2CID   9782923.
  3. Love CA, Harlos K, Mavaddat N, Davis SJ, Stuart DI, Jones EY, Esnouf RM (October 2003). "The ligand-binding face of the semaphorins revealed by the high-resolution crystal structure of SEMA4D". Nature Structural Biology. 10 (10): 843–8. doi:10.1038/nsb977. PMID   12958590. S2CID   24468463.
  4. Stamos J, Lazarus RA, Yao X, Kirchhofer D, Wiesmann C (June 2004). "Crystal structure of the HGF beta-chain in complex with the Sema domain of the Met receptor". The EMBO Journal. 23 (12): 2325–35. doi:10.1038/sj.emboj.7600243. PMC   423285 . PMID   15167892.
This article incorporates text from the public domain Pfam and InterPro: IPR001627