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PDBsum entry 1l0x

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Immune system PDB id
1l0x

 

 

 

 

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Contents
Protein chains
236 a.a. *
221 a.a. *
Ligands
GOL ×3
Waters ×181
* Residue conservation analysis
PDB id:
1l0x
Name: Immune system
Title: Tcr beta chain complexed with streptococcal superantigen spea
Structure: 14.3.D t cell receptor beta chain. Chain: a, c. Engineered: yes. Mutation: yes. Exotoxin type a. Chain: b, d. Synonym: scarlet fever toxin, erythrogenic toxin, spe a. Engineered: yes. Mutation: yes
Source: Mus musculus. House mouse. Organism_taxid: 10090. Expressed in: mus musculus. Expression_system_taxid: 10090. Expression_system_cell_line: j558l. Streptococcus pyogenes. Organism_taxid: 1314. Expressed in: escherichia coli.
Resolution:
2.80Å     R-factor:   0.232     R-free:   0.278
Authors: H.Li,E.J.Sundberg,R.A.Mariuzza
Key ref:
E.J.Sundberg et al. (2002). Structures of two streptococcal superantigens bound to TCR beta chains reveal diversity in the architecture of T cell signaling complexes. Structure, 10, 687-699. PubMed id: 12015151 DOI: 10.1016/S0969-2126(02)00759-1
Date:
14-Feb-02     Release date:   03-Apr-02    
PROCHECK
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 Headers
 References

Protein chains
Pfam   ArchSchema ?
P01851  (TCB2_MOUSE) -  T-cell receptor beta-2 chain C region from Mus musculus
Seq:
Struc:
173 a.a.
236 a.a.*
Protein chains
Pfam   ArchSchema ?
P0DJY7  (SPEA_STRPY) -  Exotoxin type A from Streptococcus pyogenes
Seq:
Struc:
250 a.a.
221 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 33 residue positions (black crosses)

 

 
DOI no: 10.1016/S0969-2126(02)00759-1 Structure 10:687-699 (2002)
PubMed id: 12015151  
 
 
Structures of two streptococcal superantigens bound to TCR beta chains reveal diversity in the architecture of T cell signaling complexes.
E.J.Sundberg, H.Li, A.S.Llera, J.K.McCormick, J.Tormo, P.M.Schlievert, K.Karjalainen, R.A.Mariuzza.
 
  ABSTRACT  
 
Superantigens (SAGs) crosslink MHC class II and TCR molecules, resulting in an overstimulation of T cells associated with human disease. SAGs interact with several different surfaces on MHC molecules, necessitating the formation of multiple distinct MHC-SAG-TCR ternary signaling complexes. Variability in SAG-TCR binding modes could also contribute to the structural heterogeneity of SAG-dependent signaling complexes. We report crystal structures of the streptococcal SAGs SpeA and SpeC in complex with their corresponding TCR beta chain ligands that reveal distinct TCR binding modes. The SpeC-TCR beta chain complex structure, coupled with the recently determined SpeC-HLA-DR2a complex structure, provides a model for a novel T cell signaling complex that precludes direct TCR-MHC interactions. Thus, highly efficient T cell activation may be achieved through structurally diverse strategies of TCR ligation.
 
  Selected figure(s)  
 
Figure 3.
Figure 3. Diverse TCR b Chain Molecular Surface Burial by Bacterial SuperantigensMolecular surface of (A) hVb2.1 buried by SpeC, (B) mVb8.2 buried by SpeA, and (C) mVb8.2 buried by SEB. Colors are as follows: CDR1 buried molecular surface, red; CDR2 and associated FR buried molecular surface, green; HV4 and associated FR buried molecular surface, yellow; CDR3 buried molecular surface, blue.
 
  The above figure is reprinted by permission from Cell Press: Structure (2002, 10, 687-699) copyright 2002.  
  Figure was selected by the author.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
21081917 M.Saline, K.E.Rödström, G.Fischer, V.Y.Orekhov, B.G.Karlsson, and K.Lindkvist-Petersson (2010).
The structure of superantigen complexed with TCR and MHC reveals novel insights into superantigenic T cell activation.
  Nat Commun, 1, 119.
PDB codes: 2xn9 2xna
19452551 N.Kowalsman, and M.Eisenstein (2009).
Combining interface core and whole interface descriptors in postscan processing of protein-protein docking models.
  Proteins, 77, 297-318.  
18716897 Y.Ou, C.Tong, Y.Zhang, P.Cai, J.Gu, Y.Liu, H.Liu, H.Wang, B.Chu, and P.Zhu (2009).
An improved design of PCR primers for detection of human T cell receptor beta chain repertoire.
  Mol Biol Rep, 36, 145-152.  
17925020 A.Shulman-Peleg, M.Shatsky, R.Nussinov, and H.J.Wolfson (2007).
Spatial chemical conservation of hot spot interactions in protein-protein complexes.
  BMC Biol, 5, 43.  
17268555 B.Moza, A.K.Varma, R.A.Buonpane, P.Zhu, C.A.Herfst, M.J.Nicholson, A.K.Wilbuer, N.P.Seth, K.W.Wucherpfennig, J.K.McCormick, D.M.Kranz, and E.J.Sundberg (2007).
Structural basis of T-cell specificity and activation by the bacterial superantigen TSST-1.
  EMBO J, 26, 1187-1197.
PDB code: 2ij0
17560120 E.J.Sundberg, L.Deng, and R.A.Mariuzza (2007).
TCR recognition of peptide/MHC class II complexes and superantigens.
  Semin Immunol, 19, 262-271.  
17427250 M.M.Fernández, S.Bhattacharya, M.C.De Marzi, P.H.Brown, M.Kerzic, P.Schuck, R.A.Mariuzza, and E.L.Malchiodi (2007).
Superantigen natural affinity maturation revealed by the crystal structure of staphylococcal enterotoxin G and its binding to T-cell receptor Vbeta8.2.
  Proteins, 68, 389-402.  
17560605 S.Günther, A.K.Varma, B.Moza, K.J.Kasper, A.W.Wyatt, P.Zhu, A.K.Rahman, Y.Li, R.A.Mariuzza, J.K.McCormick, and E.J.Sundberg (2007).
A novel loop domain in superantigens extends their T cell receptor recognition site.
  J Mol Biol, 371, 210-221.
PDB codes: 2nts 2ntt
16829512 M.M.Fernández, R.Guan, C.P.Swaminathan, E.L.Malchiodi, and R.A.Mariuzza (2006).
Crystal structure of staphylococcal enterotoxin I (SEI) in complex with a human major histocompatibility complex class II molecule.
  J Biol Chem, 281, 25356-25364.
PDB code: 2g9h
15981246 D.Law, M.Hotchko, and L.Ten Eyck (2005).
Progress in computation and amide hydrogen exchange for prediction of protein-protein complexes.
  Proteins, 60, 302-307.  
16260763 H.Li, S.Van Vranken, Y.Zhao, Z.Li, Y.Guo, L.Eisele, and Y.Li (2005).
Crystal structures of T cell receptor (beta) chains related to rheumatoid arthritis.
  Protein Sci, 14, 3025-3038.
PDB codes: 2axh 2axj
15659362 J.Janin (2005).
Assessing predictions of protein-protein interaction: the CAPRI experiment.
  Protein Sci, 14, 278-283.  
15821740 M.Hahn, M.J.Nicholson, J.Pyrdol, and K.W.Wucherpfennig (2005).
Unconventional topology of self peptide-major histocompatibility complex binding by a human autoimmune T cell receptor.
  Nat Immunol, 6, 490-496.
PDB code: 1ymm
15981271 P.Carter, V.I.Lesk, S.A.Islam, and M.J.Sternberg (2005).
Protein-protein docking using 3D-Dock in rounds 3, 4, and 5 of CAPRI.
  Proteins, 60, 281-288.  
15247241 H.M.Baker, T.Proft, P.D.Webb, V.L.Arcus, J.D.Fraser, and E.N.Baker (2004).
Crystallographic and mutational data show that the streptococcal pyrogenic exotoxin J can use a common binding surface for T-cell receptor binding and dimerization.
  J Biol Chem, 279, 38571-38576.
PDB codes: 1ty0 1ty2
15049778 K.Petersson, G.Forsberg, and B.Walse (2004).
Interplay between superantigens and immunoreceptors.
  Scand J Immunol, 59, 345-355.  
15479236 M.C.De Marzí, M.M.Fernández, E.J.Sundberg, L.Molinero, N.W.Zwirner, A.S.Llera, R.A.Mariuzza, and E.L.Malchiodi (2004).
Cloning, expression and interaction of human T-cell receptors with the bacterial superantigen SSA.
  Eur J Biochem, 271, 4075-4083.  
12784373 C.J.Camacho, and D.W.Gatchell (2003).
Successful discrimination of protein interactions.
  Proteins, 52, 92-97.  
12784374 D.W.Ritchie (2003).
Evaluation of protein docking predictions using Hex 3.1 in CAPRI rounds 1 and 2.
  Proteins, 52, 98.  
12784376 J.Fernández-Recio, M.Totrov, and R.Abagyan (2003).
ICM-DISCO docking by global energy optimization with fully flexible side-chains.
  Proteins, 52, 113-117.  
12831891 J.Janin, and B.Séraphin (2003).
Genome-wide studies of protein-protein interaction.
  Curr Opin Struct Biol, 13, 383-388.  
12784359 J.Janin, K.Henrick, J.Moult, L.T.Eyck, M.J.Sternberg, S.Vajda, I.Vakser, and S.J.Wodak (2003).
CAPRI: a Critical Assessment of PRedicted Interactions.
  Proteins, 52, 2-9.  
12784362 L.Krippahl, J.J.Moura, and P.N.Palma (2003).
Modeling protein complexes with BiGGER.
  Proteins, 52, 19-23.  
12595474 T.J.Tripp, J.K.McCormick, J.M.Webb, and P.M.Schlievert (2003).
The zinc-dependent major histocompatibility complex class II binding site of streptococcal pyrogenic exotoxin C is critical for maximal superantigen function and toxic activity.
  Infect Immun, 71, 1548-1550.  
12595453 T.Proft, P.D.Webb, V.Handley, and J.D.Fraser (2003).
Two novel superantigens found in both group A and group C Streptococcus.
  Infect Immun, 71, 1361-1369.  
12473669 W.Swietnicki, A.M.Barnie, B.K.Dyas, and R.G.Ulrich (2003).
Zinc binding and dimerization of Streptococcus pyogenes pyrogenic exotoxin C are not essential for T-cell stimulation.
  J Biol Chem, 278, 9885-9895.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.

 

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