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T cell receptor alpha joining 42

J region of the variable domain of T cell receptor (TR) alpha chain that participates in the antigen recognition1. Alpha-beta T cell receptors are antigen specific receptors which are essential to the immune response and are present on the cell surface of T lymphocytes. Recognize peptide-major histocompatibility (MH) (pMH) complexes that are displayed by antigen presenting cells (APC), a prerequisite for efficient T cell adaptive immunity against pathogens2. Binding of alpha-beta TR to pMH complex initiates TR-CD3 clustering on the cell surface and intracellular activation of LCK that phosphorylates the ITAM motifs of CD3G, CD3D, CD3E and CD247 enabling the recruitment of ZAP70. In turn, ZAP70 phosphorylates LAT, which recruits numerous signaling molecules to form the LAT signalosome. The LAT signalosome propagates signal branching to three major signaling pathways, the calcium, the mitogen-activated protein kinase (MAPK) kinase and the nuclear factor NF-kappa-B (NF-kB) pathways, leading to the mobilization of transcription factors that are critical for gene expression and essential for T cell growth and differentiation3. The T cell repertoire is generated in the thymus, by V-(D)-J rearrangement. This repertoire is then shaped by intrathymic selection events to generate a peripheral T cell pool of self-MH restricted, non-autoaggressive T cells. Post-thymic interaction of alpha-beta TR with the pMH complexes shapes TR structural and functional avidity4.

AlphaFold DB , UniProt , Accession A0A075B6Y9, Species HUMAN (Homo sapiens, Human), Gene TRAJ42, Length 20 aa.

>TJA42_HUMAN|A0A075B6Y9|TRAJ42
YGGSQGNLIFGKGTKLSVKP
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Site Residue pLDDT pLDDT confidence pLDDT10 pLDDT10 confidence SASA SASA [Ų] SASA10 SASA10 [Ų] RSA RSA unformatted RSA10 RSA10 unformatted Surface Surface10 (not used) Disorder (not used) Disorder Sec. str. Secondary structure Isomer Phi (φ) Psi (ψ) Omega (ω) Chi 1 (χ1) Chi 2 (χ2) Chi 3 (χ3) Chi 4 (χ4) Chi 5 (χ5) Tau (τ) Contacts (colored by PAE) Contact details
1Y54.3Low78.7Confident299 Ų299139.8 Ų139.8100%1.17382%0.821SS**  0930-65.8-89.9000108.5
2G59.6Low80.1Confident83 Ų83146.5 Ų146.586%0.85683%0.832SS**  trans-143.576.8-17700000109.2
3G71.7Confident81.2Confident69 Ų69139.9 Ų139.971%0.71182%0.817SS**  trans-79.4132.4174.400000109.5Q5G3-Q5 PolarHBondContact O-N 3.06Å
4S73.7Confident82.2Confident124 Ų124139.4 Ų139.487%0.86782%0.817SS**  trans-45.6112.1175.5-1740000111G6S4-G6 PolarHBondContact O-N 3.42Å
5Q75.6Confident83Confident190 Ų190143.5 Ų143.589%0.88882%0.82SS**  trans-74.277.4170.3-77.2-177.8-40.600108.3G3 N7G3-Q5 PolarHBondContact O-N 3.06Å; Q5-N7 PolarHBondContact O-N 3.5Å
6G83.8Confident83.7Confident55 Ų55144 Ų14457%0.56782%0.819SS**PPolyproline II helixtrans-63.9132.216800000110S4 L8S4-G6 PolarHBondContact O-N 3.42Å; G6-L8 PolarHBondContact O-N 2.94Å
7N86.1Confident84.4Confident163 Ų163141.9 Ų141.987%0.87282%0.815SS**PPolyproline II helixtrans-60.8129.7173.5-75.8-20.8000110Q5Q5-N7 PolarHBondContact O-N 3.5Å
8L88Confident84.9Confident143 Ų143141.4 Ų141.475%0.74981%0.814SS**PPolyproline II helixtrans-77.6130.2172.1-63.3174.3000109.5G6 F10G6-L8 PolarHBondContact O-N 2.94Å; L8-F10 HydrophobicContact CB-CE2 4.15Å; L8-F10 HydrophobicContact CB-CZ 4.18Å; L8-F10 HydrophobicContact CD1-CZ 4.3Å
9I88.9Confident85.2Confident165 Ų165143.2 Ų143.285%0.84681%0.812SS**PPolyproline II helixtrans-103116.8172.4-57.6174.4000107.7
10F90.8Very high85.4Confident176 Ų176146.3 Ų146.377%0.77284%0.837SS**PPolyproline II helixtrans-87.5133.1179-64-82.7000111.1L8L8-F10 HydrophobicContact CB-CE2 4.15Å; L8-F10 HydrophobicContact CB-CZ 4.18Å; L8-F10 HydrophobicContact CD1-CZ 4.3Å
11G92.9Very high85.4Confident71 Ų71146.3 Ų146.373%0.73284%0.837SS**  trans-78.6-179.9170.700000112.6G13G11-G13 PolarHBondContact O-N 3.39Å
12K95.7Very high87Confident220 Ų220138.2 Ų138.296%0.95782%0.82SS**  trans-65.7-7.8-178.3-66-176.7177.4179.70115.1
13G94.1Very high88.6Confident61 Ų61141.3 Ų141.363%0.62982%0.818SS**  trans68.8178.2-173.200000113.1G11G11-G13 PolarHBondContact O-N 3.39Å
14T95.8Very high89.6Confident133 Ų133145.5 Ų145.582%0.81682%0.824SS**  trans-145.9139.7173.1-630000108.9L16T14-L16 PolarHBondContact O-N 3.05Å
15K94.3Very high90.5Very high201 Ų201146.9 Ų146.987%0.87482%0.821SS**  trans-74.9120.6178.9-173.4177.1-174.3179.90109.7
16L93.9Very high91.5Very high151 Ų151144 Ų14479%0.79182%0.817SS**  trans-84.1137.4168.2-61.8178000109.4T14T14-L16 PolarHBondContact O-N 3.05Å
17S95.7Very high92.1Very high108 Ų108150.4 Ų150.476%0.75584%0.835SS**  trans-119.3107.7175.4-173.10000107.9
18V93.8Very high92.6Very high133 Ų133149.4 Ų149.481%0.80683%0.832SS**  trans-102.1127.6177.8-176.70000107.6
19K89.9Confident92.9Very high176 Ų176149.9 Ų149.977%0.76584%0.839SS**  trans-92.2152170.1-67.9-179.7-179.3177.90108.4
20P89.7Confident93.3Very high204 Ų204148.5 Ų148.5100%1.32584%0.838SS**  trans-490-175.3-25.833.8000113.8

Retrieved 20 of 20 residues in 24.4 ms (Link to these results)