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PDBsum entry 1bqh
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Immune system PDB id
1bqh

 

 

 

 

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Contents
Protein chains
274 a.a. *
99 a.a. *
122 a.a. *
Ligands
ARG-GLY-TYR-VAL-
TYR-GLN-GLY-LEU ×2
NAG ×4
* Residue conservation analysis
PDB id:
1bqh
Name: Immune system
Title: Murine cd8aa ectodomain fragment in complex with h-2kb/vsv8
Structure: Protein (h-2 class i histocompatibility antigen). Chain: a, d. Fragment: alpha chain. Protein (beta-2-microglobulin ). Chain: b, e. Fragment: beta chain. Protein (vsv8). Chain: c, f. Fragment: antigenic peptide.
Source: Mus musculus. House mouse. Organism_taxid: 10090. Synthetic: yes. Expressed in: mus musculus. Expression_system_taxid: 10090. Expression_system_cell_line: cho lec 3.2.8.1. Other_details: gene fused to thrombin cleavage site and leucine zipper
Biol. unit: Pentamer (from PQS)
Resolution:
2.80Å     R-factor:   0.212     R-free:   0.296
Authors: J.H.Wang,E.L.Reinherz,P.S.Kern,H.C.Chang
Key ref:
P.S.Kern et al. (1998). Structural basis of CD8 coreceptor function revealed by crystallographic analysis of a murine CD8alphaalpha ectodomain fragment in complex with H-2Kb. Immunity, 9, 519-530. PubMed id: 9806638 DOI: 10.1016/S1074-7613(00)80635-4
Date:
16-Aug-98     Release date:   19-Aug-98    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
P01901  (HA1B_MOUSE) -  H-2 class I histocompatibility antigen, K-B alpha chain from Mus musculus
Seq:
Struc: 		369 a.a.
274 a.a.
Protein chains
Pfam   ArchSchema ?
P01887  (B2MG_MOUSE) -  Beta-2-microglobulin from Mus musculus
Seq:
Struc: 		119 a.a.
99 a.a.*
Protein chains
Pfam   ArchSchema ?
P01731  (CD8A_MOUSE) -  T-cell surface glycoprotein CD8 alpha chain from Mus musculus
Seq:
Struc: 		247 a.a.
122 a.a.
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 

 
DOI no: 10.1016/S1074-7613(00)80635-4 Immunity 9:519-530 (1998)
PubMed id: 9806638  
 
 
Structural basis of CD8 coreceptor function revealed by crystallographic analysis of a murine CD8alphaalpha ectodomain fragment in complex with H-2Kb.
P.S.Kern, M.K.Teng, A.Smolyar, J.H.Liu, J.Liu, R.E.Hussey, R.Spoerl, H.C.Chang, E.L.Reinherz, J.H.Wang.
 
  ABSTRACT  
 
The crystal structure of the two immunoglobulin variable-like domains of the murine CD8alphaalpha homodimer complexed to the class I MHC H-2Kb molecule at 2.8 A resolution shows that CD8alphaalpha binds to the protruding MHC alpha3 domain loop in an antibody-like manner. Comparison of mouse CD8alphaalpha/H-2Kb and human CD8alphaalpha/HLA-A2 complexes reveals shared as well as species-specific recognition features. In both species, coreceptor function apparently involves the participation of CD8 dimer in a bidentate attachment to an MHC class I molecule in conjunction with a T cell receptor without discernable conformational alteration of the peptide or MHC antigen-presenting platform.
 
  Selected figure(s)  
 
Figure 1.
Figure 1. Overall View of the m-CD8aa/ VSV8-H-2K b Crystal Structure 		Figure 5.
Figure 5. Detailed Interaction among mCD8aa and H-2K b
 
  The above figures are reprinted by permission from Cell Press: Immunity (1998, 9, 519-530) copyright 1998.  
  Figures were selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
21256056 N.Jiang, J.Huang, L.J.Edwards, B.Liu, Y.Zhang, C.D.Beal, B.D.Evavold, and C.Zhu (2011).
Two-stage cooperative T cell receptor-peptide major histocompatibility complex-CD8 trimolecular interactions amplify antigen discrimination.
  Immunity, 34, 13-23.  
20190139 L.Wooldridge, M.Clement, A.Lissina, E.S.Edwards, K.Ladell, J.Ekeruche, R.E.Hewitt, B.Laugel, E.Gostick, D.K.Cole, R.Debets, C.Berrevoets, J.J.Miles, S.R.Burrows, D.A.Price, and A.K.Sewell (2010).
MHC class I molecules with Superenhanced CD8 binding properties bypass the requirement for cognate TCR recognition and nonspecifically activate CTLs.
  J Immunol, 184, 3357-3366.  
20881472 M.S.Bennett, A.Joseph, H.L.Ng, H.Goldstein, and O.O.Yang (2010).
Fine-tuning of T-cell receptor avidity to increase HIV epitope variant recognition by cytotoxic T lymphocytes.
  AIDS, 24, 2619-2628.  
19950178 Y.J.Kang, X.Wang, S.J.Lin, Y.M.Hsu, and H.C.Chang (2010).
An active CD8alpha/pMHCI interaction is required for CD8 single positive thymocyte differentiation.
  Eur J Immunol, 40, 836-848.  
19553539 A.S.Chervin, J.D.Stone, P.D.Holler, A.Bai, J.Chen, H.N.Eisen, and D.M.Kranz (2009).
The impact of TCR-binding properties and antigen presentation format on T cell responsiveness.
  J Immunol, 183, 1166-1178.  
19565478 J.D.Taurog, M.L.Dorris, N.Satumtira, T.M.Tran, R.Sharma, R.Dressel, J.van den Brandt, and H.M.Reichardt (2009).
Spondylarthritis in HLA-B27/human beta(2)-microglobulin-transgenic rats is not prevented by lack of CD8.
  Arthritis Rheum, 60, 1977-1984.  
19137599 L.Zong, Y.Chen, H.Peng, F.Gao, A.Iwamoto, and G.F.Gao (2009).
Rhesus macaque: a tight homodimeric CD8alphaalpha.
  Proteins, 75, 241-244.  
19625641 R.Wang, K.Natarajan, and D.H.Margulies (2009).
Structural basis of the CD8 alpha beta/MHC class I interaction: focused recognition orients CD8 beta to a T cell proximal position.
  J Immunol, 183, 2554-2564.
PDB codes: 3dmm 3ecb
19755427 S.T.Kim, K.Takeuchi, Z.Y.Sun, M.Touma, C.E.Castro, A.Fahmy, M.J.Lang, G.Wagner, and E.L.Reinherz (2009).
The alphabeta T cell receptor is an anisotropic mechanosensor.
  J Biol Chem, 284, 31028-31037.  
19472182 Y.Chen, Y.Shi, H.Cheng, Y.Q.An, and G.F.Gao (2009).
Structural immunology and crystallography help immunologists see the immune system in action: how T and NK cells touch their ligands.
  IUBMB Life, 61, 579-590.  
18929574 D.A.Shore, H.Issafras, E.Landais, L.Teyton, and I.A.Wilson (2008).
The crystal structure of CD8 in complex with YTS156.7.7 Fab and interaction with other CD8 antibodies define the binding mode of CD8 alphabeta to MHC class I.
  J Mol Biol, 384, 1190-1202.
PDB code: 3b9k
18201367 D.J.Gibbings, A.F.Ghetu, R.Dery, and A.D.Befus (2008).
Macrophage migration inhibitory factor has a MHC class I-like motif and function.
  Scand J Immunol, 67, 121-132.  
18726714 E.J.Collins, and D.S.Riddle (2008).
TCR-MHC docking orientation: natural selection, or thymic selection?
  Immunol Res, 41, 267-294.  
18650389 G.J.Freeman (2008).
Structures of PD-1 with its ligands: sideways and dancing cheek to cheek.
  Proc Natl Acad Sci U S A, 105, 10275-10276.  
18275828 H.Cheroutre, and F.Lambolez (2008).
Doubting the TCR coreceptor function of CD8alphaalpha.
  Immunity, 28, 149-159.  
18593354 J.D.Silk, M.Salio, J.Brown, E.Y.Jones, and V.Cerundolo (2008).
Structural and functional aspects of lipid binding by CD1 molecules.
  Annu Rev Cell Dev Biol, 24, 369-395.  
18378495 J.K.Archbold, W.A.Macdonald, S.R.Burrows, J.Rossjohn, and J.McCluskey (2008).
T-cell allorecognition: a case of mistaken identity or déjà vu?
  Trends Immunol, 29, 220-226.  
18703505 T.Mareeva, E.Martinez-Hackert, and Y.Sykulev (2008).
How a T cell receptor-like antibody recognizes major histocompatibility complex-bound peptide.
  J Biol Chem, 283, 29053-29059.
PDB codes: 3cvh 3cvi
17369261 D.Hatherley, K.Harlos, D.C.Dunlop, D.I.Stuart, and A.N.Barclay (2007).
The structure of the macrophage signal regulatory protein alpha (SIRPalpha) inhibitory receptor reveals a binding face reminiscent of that used by T cell receptors.
  J Biol Chem, 282, 14567-14575.
PDB code: 2uv3
18083574 M.Koch, S.Camp, T.Collen, D.Avila, J.Salomonsen, H.J.Wallny, A.van Hateren, L.Hunt, J.P.Jacob, F.Johnston, D.A.Marston, I.Shaw, P.R.Dunbar, V.Cerundolo, E.Y.Jones, and J.Kaufman (2007).
Structures of an MHC class I molecule from B21 chickens illustrate promiscuous peptide binding.
  Immunity, 27, 885-899.
PDB codes: 3bev 3bew
17438291 P.D.Holler, T.Yamagata, W.Jiang, M.Feuerer, C.Benoist, and D.Mathis (2007).
The same genomic region conditions clonal deletion and clonal deviation to the CD8alphaalpha and regulatory T cell lineages in NOD versus C57BL/6 mice.
  Proc Natl Acad Sci U S A, 104, 7187-7192.  
16918695 B.Rubin, J.Riond, J.Leghait, and J.E.Gairin (2006).
Interactions between CD8alphabeta and the TCRalphabeta/CD3-receptor complex.
  Scand J Immunol, 64, 260-270.  
16840780 H.C.Chang, K.Tan, and Y.M.Hsu (2006).
CD8alphabeta has two distinct binding modes of interaction with peptide-major histocompatibility complex class I.
  J Biol Chem, 281, 28090-28096.  
16500675 K.Natarajan, A.Hicks, J.Mans, H.Robinson, R.Guan, R.A.Mariuzza, and D.H.Margulies (2006).
Crystal structure of the murine cytomegalovirus MHC-I homolog m144.
  J Mol Biol, 358, 157-171.
PDB code: 1u58
16551255 M.G.Rudolph, R.L.Stanfield, and I.A.Wilson (2006).
How TCRs bind MHCs, peptides, and coreceptors.
  Annu Rev Immunol, 24, 419-466.  
15614759 F.Glaser, Y.Rosenberg, A.Kessel, T.Pupko, and N.Ben-Tal (2005).
The ConSurf-HSSP database: the mapping of evolutionary conservation among homologs onto PDB structures.
  Proteins, 58, 610-617.  
16356863 H.C.Chang, K.Tan, J.Ouyang, E.Parisini, J.H.Liu, Y.Le, X.Wang, E.L.Reinherz, and J.H.Wang (2005).
Structural and mutational analyses of a CD8alphabeta heterodimer and comparison with the CD8alphaalpha homodimer.
  Immunity, 23, 661-671.
PDB code: 2atp
15837791 L.Wooldridge, H.A.van den Berg, M.Glick, E.Gostick, B.Laugel, S.L.Hutchinson, A.Milicic, J.M.Brenchley, D.C.Douek, D.A.Price, and A.K.Sewell (2005).
Interaction between the CD8 coreceptor and major histocompatibility complex class I stabilizes T cell receptor-antigen complexes at the cell surface.
  J Biol Chem, 280, 27491-27501.  
15805102 M.Cebecauer, P.Guillaume, S.Mark, O.Michielin, N.Boucheron, M.Bezard, B.H.Meyer, J.M.Segura, H.Vogel, and I.F.Luescher (2005).
CD8+ cytotoxic T lymphocyte activation by soluble major histocompatibility complex-peptide dimers.
  J Biol Chem, 280, 23820-23828.  
16089503 R.Olson, K.E.Huey-Tubman, C.Dulac, and P.J.Bjorkman (2005).
Structure of a pheromone receptor-associated MHC molecule with an open and empty groove.
  PLoS Biol, 3, e257.
PDB code: 1zs8
15660246 W.Held, A.Chalifour, and J.D.Coudert (2005).
Regulation of natural killer cell function: a role for the NK cell's own MHC class I molecules.
  Med Microbiol Immunol, 194, 169-174.  
16231286 W.Zhong, and E.L.Reinherz (2005).
CD8 alpha alpha homodimer expression and role in CD8 T cell memory generation during influenza virus A infection in mice.
  Eur J Immunol, 35, 3103-3110.  
15084288 A.K.Mitra, H.Célia, G.Ren, J.G.Luz, I.A.Wilson, and L.Teyton (2004).
Supine orientation of a murine MHC class I molecule on the membrane bilayer.
  Curr Biol, 14, 718-724.  
14555655 R.C.Hillig, M.Hülsmeyer, W.Saenger, K.Welfle, R.Misselwitz, H.Welfle, C.Kozerski, A.Volz, B.Uchanska-Ziegler, and A.Ziegler (2004).
Thermodynamic and structural analysis of peptide- and allele-dependent properties of two HLA-B27 subtypes exhibiting differential disease association.
  J Biol Chem, 279, 652-663.
PDB code: 1jgd
12676960 A.H.Merry, R.J.Gilbert, D.A.Shore, L.Royle, O.Miroshnychenko, M.Vuong, M.R.Wormald, D.J.Harvey, R.A.Dwek, B.J.Classon, P.M.Rudd, and S.J.Davis (2003).
O-glycan sialylation and the structure of the stalk-like region of the T cell co-receptor CD8.
  J Biol Chem, 278, 27119-27128.  
12459555 A.M.Moody, S.J.North, B.Reinhold, S.J.Van Dyken, M.E.Rogers, M.Panico, A.Dell, H.R.Morris, J.D.Marth, and E.L.Reinherz (2003).
Sialic acid capping of CD8beta core 1-O-glycans controls thymocyte-major histocompatibility complex class I interaction.
  J Biol Chem, 278, 7240-7246.  
14563323 J.Buslepp, H.Wang, W.E.Biddison, E.Appella, and E.J.Collins (2003).
A correlation between TCR Valpha docking on MHC and CD8 dependence: implications for T cell selection.
  Immunity, 19, 595-606.
PDB code: 1lp9
12787753 J.H.Wang, and M.J.Eck (2003).
Assembling atomic resolution views of the immunological synapse.
  Curr Opin Immunol, 15, 286-293.  
12615890 P.A.van der Merwe, and S.J.Davis (2003).
Molecular interactions mediating T cell antigen recognition.
  Annu Rev Immunol, 21, 659-684.  
12594948 Y.Liu, Y.Xiong, O.V.Naidenko, J.H.Liu, R.Zhang, A.Joachimiak, M.Kronenberg, H.Cheroutre, E.L.Reinherz, and J.H.Wang (2003).
The crystal structure of a TL/CD8alphaalpha complex at 2.1 A resolution: implications for modulation of T cell activation and memory.
  Immunity, 18, 205-215.
PDB code: 1nez
12133804 G.F.Gao, Z.Rao, and J.I.Bell (2002).
Molecular coordination of alphabeta T-cell receptors and coreceptors CD8 and CD4 in their recognition of peptide-MHC ligands.
  Trends Immunol, 23, 408-413.  
11861620 K.Natarajan, N.Dimasi, J.Wang, R.A.Mariuzza, and D.H.Margulies (2002).
Structure and function of natural killer cell receptors: multiple molecular solutions to self, nonself discrimination.
  Annu Rev Immunol, 20, 853-885.  
11790533 M.G.Rudolph, and I.A.Wilson (2002).
The specificity of TCR/pMHC interaction.
  Curr Opin Immunol, 14, 52-65.  
11988465 M.G.Rudolph, J.G.Luz, and I.A.Wilson (2002).
Structural and thermodynamic correlates of T cell signaling.
  Annu Rev Biophys Biomol Struct, 31, 121-149.  
11839290 N.R.Gascoigne (2002).
T-cell differentiation: MHC class I's sweet tooth lost on maturity.
  Curr Biol, 12, R99.  
11790535 R.König (2002).
Interactions between MHC molecules and co-receptors of the TCR.
  Curr Opin Immunol, 14, 75-83.  
11719190 A.M.Moody, D.Chui, P.A.Reche, J.J.Priatel, J.D.Marth, and E.L.Reinherz (2001).
Developmentally regulated glycosylation of the CD8alphabeta coreceptor stalk modulates ligand binding.
  Cell, 107, 501-512.  
11536178 A.M.Moody, Y.Xiong, H.C.Chang, and E.L.Reinherz (2001).
The CD8alphabeta co-receptor on double-positive thymocytes binds with differing affinities to the products of distinct class I MHC loci.
  Eur J Immunol, 31, 2791-2799.  
11535811 J.H.Wang, R.Meijers, Y.Xiong, J.H.Liu, T.Sakihama, R.Zhang, A.Joachimiak, and E.L.Reinherz (2001).
Crystal structure of the human CD4 N-terminal two-domain fragment complexed to a class II MHC molecule.
  Proc Natl Acad Sci U S A, 98, 10799-10804.
PDB code: 1jl4
11754824 M.A.Daniels, L.Devine, J.D.Miller, J.M.Moser, A.E.Lukacher, J.D.Altman, P.Kavathas, K.A.Hogquist, and S.C.Jameson (2001).
CD8 binding to MHC class I molecules is influenced by T cell maturation and glycosylation.
  Immunity, 15, 1051-1061.  
11148219 N.Matsumoto, M.Mitsuki, K.Tajima, W.M.Yokoyama, and K.Yamamoto (2001).
The functional binding site for the C-type lectin-like natural killer cell receptor Ly49A spans three domains of its major histocompatibility complex class I ligand.
  J Exp Med, 193, 147-158.  
11579290 S.Jurcevic, P.Chandler, S.H.Sacks, and E.Simpson (2001).
Rapid rejection of HLA-A2 transgenic skin graft due to indirect allorecognition.
  Transplantation, 72, 994-997.  
11606747 T.A.Potter, K.Grebe, B.Freiberg, and A.Kupfer (2001).
Formation of supramolecular activation clusters on fresh ex vivo CD8+ T cells after engagement of the T cell antigen receptor and CD8 by antigen-presenting cells.
  Proc Natl Acad Sci U S A, 98, 12624-12629.  
10634787 C.Wingren, M.P.Crowley, M.Degano, Y.Chien, and I.A.Wilson (2000).
Crystal structure of a gammadelta T cell receptor ligand T22: a truncated MHC-like fold.
  Science, 287, 310-314.
PDB code: 1c16
10809759 G.F.Gao, B.E.Willcox, J.R.Wyer, J.M.Boulter, C.A.O'Callaghan, K.Maenaka, D.I.Stuart, E.Y.Jones, P.A.Van Der Merwe, J.I.Bell, and B.K.Jakobsen (2000).
Classical and nonclassical class I major histocompatibility complex molecules exhibit subtle conformational differences that affect binding to CD8alphaalpha.
  J Biol Chem, 275, 15232-15238.  
11114502 J.Wang, and E.L.Reinherz (2000).
Structural basis of cell-cell interactions in the immune system.
  Curr Opin Struct Biol, 10, 656-661.  
  11045629 O.Schueler-Furman, Y.Altuvia, A.Sette, and H.Margalit (2000).
Structure-based prediction of binding peptides to MHC class I molecules: application to a broad range of MHC alleles.
  Protein Sci, 9, 1838-1846.  
10377186 F.Tilloy, E.Treiner, S.H.Park, C.Garcia, F.Lemonnier, H.de la Salle, A.Bendelac, M.Bonneville, and O.Lantz (1999).
An invariant T cell receptor alpha chain defines a novel TAP-independent major histocompatibility complex class Ib-restricted alpha/beta T cell subpopulation in mammals.
  J Exp Med, 189, 1907-1921.  
10631938 K.C.Garcia (1999).
Molecular interactions between extracellular components of the T-cell receptor signaling complex.
  Immunol Rev, 172, 73-85.  
10607669 K.Maenaka, and E.Y.Jones (1999).
MHC superfamily structure and the immune system.
  Curr Opin Struct Biol, 9, 745-753.  
10493174 L.Devine, and P.B.Kavathas (1999).
Molecular analysis of protein interactions mediating the function of the cell surface protein CD8.
  Immunol Res, 19, 201-210.  
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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