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PDBsum entry 2if7
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protein metals Protein-protein interface(s) links
Immune system PDB id
2if7

 

 

 

 

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Contents
Protein chain
188 a.a. *
Metals
_CA ×2
_CL
Waters ×3
* Residue conservation analysis
PDB id:
2if7
Name: Immune system
Title: Crystal structure of ntb-a
Structure: Slam family member 6. Chain: a, b, c, d. Synonym: nk-t-b-antigen, ntb-a, activating nk receptor. Engineered: yes
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: slamf6, kali. Expressed in: escherichia coli. Expression_system_taxid: 562.
Biol. unit: Dimer (from PQS)
Resolution:
3.00Å     R-factor:   0.216     R-free:   0.266
Authors: E.Cao,U.A.Ramagopal,A.A.Fedorov,E.V.Fedorov,S.G.Nathenson,S.C.Almo
Key ref:
E.Cao et al. (2006). NTB-A receptor crystal structure: insights into homophilic interactions in the signaling lymphocytic activation molecule receptor family. Immunity, 25, 559-570. PubMed id: 17045824 DOI: 10.1016/j.immuni.2006.06.020
Date:
20-Sep-06     Release date:   17-Oct-06    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
Q96DU3  (SLAF6_HUMAN) -  SLAM family member 6 from Homo sapiens
Seq:
Struc: 		332 a.a.
188 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 

 
DOI no: 10.1016/j.immuni.2006.06.020 Immunity 25:559-570 (2006)
PubMed id: 17045824  
 
 
NTB-A receptor crystal structure: insights into homophilic interactions in the signaling lymphocytic activation molecule receptor family.
E.Cao, U.A.Ramagopal, A.Fedorov, E.Fedorov, Q.Yan, J.W.Lary, J.L.Cole, S.G.Nathenson, S.C.Almo.
 
  ABSTRACT  
 
The signaling lymphocytic activation molecule (SLAM) family includes homophilic and heterophilic receptors that regulate both innate and adaptive immunity. The ectodomains of most SLAM family members are composed of an N-terminal IgV domain and a C-terminal IgC2 domain. NK-T-B-antigen (NTB-A) is a homophilic receptor that stimulates cytotoxicity in natural killer (NK) cells, regulates bactericidal activities in neutrophils, and potentiates T helper 2 (Th2) responses. The 3.0 A crystal structure of the complete NTB-A ectodomain revealed a rod-like monomer that self-associates to form a highly kinked dimer spanning an end-to-end distance of approximately 100 A. The NTB-A homophilic and CD2-CD58 heterophilic dimers show overall structural similarities but differ in detailed organization and physicochemical properties of their respective interfaces. The NTB-A structure suggests a mechanism responsible for binding specificity within the SLAM family and imposes physical constraints relevant to the colocalization of SLAM-family proteins with other signaling molecules in the immunological synapse.
 
  Selected figure(s)  
 
Figure 1.
Figure 1. Organization of the NTB-A Monomer 		Figure 4.
Figure 4. Oligomeric States of the Wild-Type and S90A NTB-A Ectodomains
 
  The above figures are reprinted by permission from Cell Press: Immunity (2006, 25, 559-570) copyright 2006.  
  Figures were selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
21219180 J.L.Cannons, S.G.Tangye, and P.L.Schwartzberg (2011).
SLAM family receptors and SAP adaptors in immunity.
  Annu Rev Immunol, 29, 665-705.  
21314428 S.Crotty (2011).
Follicular helper CD4 T cells (TFH).
  Annu Rev Immunol, 29, 621-663.  
21217702 T.Hashiguchi, T.Ose, M.Kubota, N.Maita, J.Kamishikiryo, K.Maenaka, and Y.Yanagi (2011).
Structure of the measles virus hemagglutinin bound to its cellular receptor SLAM.
  Nat Struct Mol Biol, 18, 135-141.
PDB codes: 3alw 3alx 3alz
  20300214 A.Veillette (2010).
SLAM-family receptors: immune regulators with or without SAP-family adaptors.
  Cold Spring Harb Perspect Biol, 2, a002469.  
20146065 C.Detre, M.Keszei, X.Romero, G.C.Tsokos, and C.Terhorst (2010).
SLAM family receptors and the SLAM-associated protein (SAP) modulate T cell functions.
  Semin Immunopathol, 32, 157-171.  
20010840 C.Santiago, M.L.Celma, T.Stehle, and J.M.Casasnovas (2010).
Structure of the measles virus hemagglutinin bound to the CD46 receptor.
  Nat Struct Mol Biol, 17, 124-129.
PDB code: 3inb
20153220 J.L.Cannons, H.Qi, K.T.Lu, M.Dutta, J.Gomez-Rodriguez, J.Cheng, E.K.Wakeland, R.N.Germain, and P.L.Schwartzberg (2010).
Optimal germinal center responses require a multistage T cell:B cell adhesion process involving integrins, SLAM-associated protein, and CD84.
  Immunity, 32, 253-265.  
19426233 K.Chattopadhyay, E.Lazar-Molnar, Q.Yan, R.Rubinstein, C.Zhan, V.Vigdorovich, U.A.Ramagopal, J.Bonanno, S.G.Nathenson, and S.C.Almo (2009).
Sequence, structure, function, immunity: structural genomics of costimulation.
  Immunol Rev, 229, 356-386.  
19079134 P.L.Schwartzberg, K.L.Mueller, H.Qi, and J.L.Cannons (2009).
SLAM receptors and SAP influence lymphocyte interactions, development and function.
  Nat Rev Immunol, 9, 39-46.  
19648922 Z.Dong, M.E.Cruz-Munoz, M.C.Zhong, R.Chen, S.Latour, and A.Veillette (2009).
Essential function for SAP family adaptors in the surveillance of hematopoietic cells by natural killer cells.
  Nat Immunol, 10, 973-980.  
18439809 Y.T.Bryceson, and E.O.Long (2008).
Line of attack: NK cell specificity and integration of signals.
  Curr Opin Immunol, 20, 344-352.  
17935964 A.R.Aricescu, and E.Y.Jones (2007).
Immunoglobulin superfamily cell adhesion molecules: zippers and signals.
  Curr Opin Cell Biol, 19, 543-550.  
17950006 C.A.Velikovsky, L.Deng, L.K.Chlewicki, M.M.Fernández, V.Kumar, and R.A.Mariuzza (2007).
Structure of natural killer receptor 2B4 bound to CD48 reveals basis for heterophilic recognition in signaling lymphocyte activation molecule family.
  Immunity, 27, 572-584.
PDB codes: 2ptt 2ptu 2ptv
17521918 C.Mazza, and B.Malissen (2007).
What guides MHC-restricted TCR recognition?
  Semin Immunol, 19, 225-235.  
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
17599905 N.G.Clarkson, S.J.Simmonds, M.J.Puklavec, and M.H.Brown (2007).
Direct and indirect interactions of the cytoplasmic region of CD244 (2B4) in mice and humans with FYN kinase.
  J Biol Chem, 282, 25385-25394.  
17563375 Q.Yan, V.N.Malashkevich, A.Fedorov, E.Fedorov, E.Cao, J.W.Lary, J.L.Cole, S.G.Nathenson, and S.C.Almo (2007).
Structure of CD84 provides insight into SLAM family function.
  Proc Natl Acad Sci U S A, 104, 10583-10588.
PDB code: 2pkd
18087048 R.W.Ruigrok, and D.Gerlier (2007).
Structure of the measles virus H glycoprotein sheds light on an efficient vaccine.
  Proc Natl Acad Sci U S A, 104, 20639-20640.  
18003910 T.Hashiguchi, M.Kajikawa, N.Maita, M.Takeda, K.Kuroki, K.Sasaki, D.Kohda, Y.Yanagi, and K.Maenaka (2007).
Crystal structure of measles virus hemagglutinin provides insight into effective vaccines.
  Proc Natl Acad Sci U S A, 104, 19535-19540.
PDB codes: 2zb5 2zb6
17456053 W.Korver, S.Singh, S.Liu, X.Zhao, S.Yonkovich, A.Sweeney, K.Anton, W.E.Lomas, R.Greenwood, A.Smith, D.H.Tran, P.Shinkawa, M.Jimenez, P.Yeung, G.Aguilar, S.Palencia, P.Vatta, M.Mueller, X.Zhan, E.M.Newton, Y.Liu, J.Zhao, P.Emtage, M.D.Levy, E.D.Hsi, W.D.Funk, and A.Abo (2007).
The lymphoid cell surface receptor NTB-A: a novel monoclonal antibody target for leukaemia and lymphoma therapeutics.
  Br J Haematol, 137, 307-318.  
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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