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(-) Description

Title :  CRYSTAL STRUCTURE OF STAPHYLOCOCCAL ENTEROTOXIN G (SEG) IN COMPLEX WITH A MOUSE T-CELL RECEPTOR BETA CHAIN
 
Authors :  M. M. Fernandez, S. Cho, H. Robinson, R. A. Mariuzza, E. L. Malchiodi
Date :  26 Mar 10  (Deposition) - 13 Oct 10  (Release) - 18 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Immune System, Exotoxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. M. Fernandez, S. Cho, M. C. De Marzi, M. C. Kerzic, H. Robinson, R. A. Mariuzza, E. L. Malchiodi
Crystal Structure Of Staphylococcal Enterotoxin G (Seg) In Complex With A Mouse T-Cell Receptor {Beta} Chain.
J. Biol. Chem. V. 286 1189 2011
PubMed-ID: 21059660  |  Reference-DOI: 10.1074/JBC.M110.142471

(-) Compounds

Molecule 1 - VARIABLE BETA 8.2 MOUSE T CELL RECEPTOR
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PT7.7
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 31-144
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - ENTEROTOXIN SEG
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Strain: FC30 ISOLATE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1ACT8Ligand/IonACETATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR B:90 , ILE B:92 , TYR B:207 , PHE D:45BINDING SITE FOR RESIDUE ACT B 240
2AC2SOFTWARELYS D:63 , GLU D:65 , TYR D:87 , THR D:90BINDING SITE FOR RESIDUE ACT D 240
3AC3SOFTWAREPHE B:45 , THR D:90 , TYR D:207BINDING SITE FOR RESIDUE ACT D 241
4AC4SOFTWARELYS B:63 , GLU B:65 , TYR B:87 , THR B:90 , ILE B:92BINDING SITE FOR RESIDUE ACT B 241
5AC5SOFTWAREGLY C:53 , PRO C:69 , SER D:31 , LYS D:57BINDING SITE FOR RESIDUE ACT C 117
6AC6SOFTWAREARG A:36 , ARG A:44BINDING SITE FOR RESIDUE ACT A 117
7AC7SOFTWAREASN D:41BINDING SITE FOR RESIDUE ACT D 242
8AC8SOFTWAREGLY A:53 , PRO A:69 , SER B:31 , TYR B:56 , LYS B:57 , PHE B:88BINDING SITE FOR RESIDUE ACT A 118

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:23 -A:91
2B:91 -B:108
3C:23 -C:91
4D:91 -D:108

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Ser A:7 -Pro A:8
2Gln B:1 -Pro B:2
3Val B:202 -Pro B:203
4Ser C:7 -Pro C:8
5Val D:202 -Pro D:203

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3MC0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3MC0)

(-) Exons   (0, 0)

(no "Exon" information available for 3MC0)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:109
 aligned with A2NTY6_MOUSE | A2NTY6 from UniProtKB/TrEMBL  Length:144

    Alignment length:114
                                    40        50        60        70        80        90       100       110       120       130       140    
         A2NTY6_MOUSE    31 AAVTQSPRNKVAVTGGKVTLSCNQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDIPDGYKASRPSQENFSLILELATPSQTSVYFCASGELGGFNQDTQYFGPGTRLLVL 144
               SCOP domains d3mc0a_ A: automated matches                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee..eeeee....eeeeeee.....eeeeeeee...eeeeeeee......ee.......eeeeee..eeeeee...hhhhheeeeeeeee..-----eeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 3mc0 A   2 AAVTQSPRNKVAVTGEKVTLSCQQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDIPDGYKASRPSQEQFSLILESATPSQTSVYFCASGGGG-----TLYFGAGTRLSVL 116
                                    11        21        31        41        51        61        71        81        91     |   - | ||  112    
                                                                                                                          97    98 ||         
                                                                                                                                 100|         
                                                                                                                                  107         


Chain B from PDB  Type:PROTEIN  Length:228
 aligned with D0EMB6_STAAU | D0EMB6 from UniProtKB/TrEMBL  Length:233

    Alignment length:233
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230   
         D0EMB6_STAAU     1 QPDPKLDELNKVSDYKSNKGTMGNVMNLYMSPPVEGRGVINSRQFLSHDLIFPIEYKSYNEVKTELENTELANNYKGKKVDIFGVPYFYTCIIPKSEPDINQNFGGCCMYGGLTFNSSENERDKLITVQVTIDNRQSLGFTITTNKNMVTIQELDYKARHWLTKEKKLYEFDGSAFESGYIKFTEKNNTSFWFDLFPKKELVPFVPYKFLNIYGDNKVVDSKSIKMEVFLNTH 233
               SCOP domains d3mc0b1 B:1-115 automated matches                                                                                  d3mc0b2 B:116-233 automated matches                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh.hhhhhhhh...hhhhhhhhhh..eeeeee.........eeee.........eeee..hhhhhhhhh...eeeee.............-----....eeee..eee........eeeeeeeee...eeeeeeeee...eeehhhhhhhhhhhhhhhhh..........eeeeeee.....eeeee...........hhhhhhhhhhh.eee....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mc0 B   1 QPDPKLDELNKVSDYKSNKGTMGNVMNLYMSPPVEGRGVINSRQFLSHDLIFPIEYKSYNEVKTELENTELANNYKGKKVDIFGVPYFYTCIIPKSE-----NFGGCCMYGGLTFNSSENERDKLITVQVTIDNRQSLGFTITTNKNMVTIQELDYKARHWLTKEKKLYEFDGSAFESGYIKFTEKNNTSFWFDLFPKKELVPFVPYKFLNIYGDNKVVDSKSIKMEVFLNTH 233
                                    10        20        30        40        50        60        70        80        90      |  -  |    110       120       130       140       150       160       170       180       190       200       210       220       230   
                                                                                                                           97   103                                                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:109
 aligned with A2NTY6_MOUSE | A2NTY6 from UniProtKB/TrEMBL  Length:144

    Alignment length:114
                                    40        50        60        70        80        90       100       110       120       130       140    
         A2NTY6_MOUSE    31 AAVTQSPRNKVAVTGGKVTLSCNQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDIPDGYKASRPSQENFSLILELATPSQTSVYFCASGELGGFNQDTQYFGPGTRLLVL 144
               SCOP domains d3mc0c_ C: automated matches                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee..eeeee....eeeeeee.....eeeeeeee...eeeeeeee......ee.......eee.....eeeeee...hhhhheeeeeeeee..-----eeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 3mc0 C   2 AAVTQSPRNKVAVTGEKVTLSCQQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDIPDGYKASRPSQEQFSLILESATPSQTSVYFCASGGGG-----TLYFGAGTRLSVL 116
                                    11        21        31        41        51        61        71        81        91     |   - | ||  112    
                                                                                                                          97    98 ||         
                                                                                                                                 100|         
                                                                                                                                  107         


Chain D from PDB  Type:PROTEIN  Length:227
 aligned with D0EMB6_STAAU | D0EMB6 from UniProtKB/TrEMBL  Length:233

    Alignment length:232
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  
         D0EMB6_STAAU     2 PDPKLDELNKVSDYKSNKGTMGNVMNLYMSPPVEGRGVINSRQFLSHDLIFPIEYKSYNEVKTELENTELANNYKGKKVDIFGVPYFYTCIIPKSEPDINQNFGGCCMYGGLTFNSSENERDKLITVQVTIDNRQSLGFTITTNKNMVTIQELDYKARHWLTKEKKLYEFDGSAFESGYIKFTEKNNTSFWFDLFPKKELVPFVPYKFLNIYGDNKVVDSKSIKMEVFLNTH 233
               SCOP domains d3mc0d1 D:2-115 automated matches                                                                                 d3mc0d2 D:116-233 automated matches                                                                                    SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------------------Stap_Strp_toxin-3mc0D03 D:24-116                                                             -------Stap_Strp_tox_C-3mc0D01 D:124-231                                                                           -- Pfam domains (1)
           Pfam domains (2) ----------------------Stap_Strp_toxin-3mc0D04 D:24-116                                                             -------Stap_Strp_tox_C-3mc0D02 D:124-231                                                                           -- Pfam domains (2)
         Sec.struct. author .........hhhhhhhh...hhhhhhhhhh..eeeeee.........eeee.........eeee..hhhhhhhhh...eeeee.............-----....eeee..eee........eeeeeeeee..eeeeeeeeee...eeehhhhhhhhhhhhhhhhh..........eeeeeee.....eeeee...........hhhhhhhhhhh.eee....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mc0 D   2 PDPKLDELNKVSDYKSNKGTMGNVMNLYMSPPVEGRGVINSRQFLSHDLIFPIEYKSYNEVKTELENTELANNYKGKKVDIFGVPYFYTCIIPKSE-----NFGGCCMYGGLTFNSSENERDKLITVQVTIDNRQSLGFTITTNKNMVTIQELDYKARHWLTKEKKLYEFDGSAFESGYIKFTEKNNTSFWFDLFPKKELVPFVPYKFLNIYGDNKVVDSKSIKMEVFLNTH 233
                                    11        21        31        41        51        61        71        81        91     |   - |     111       121       131       141       151       161       171       181       191       201       211       221       231  
                                                                                                                          97   103
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MC0)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: Ant-toxin_C (48)
(-)
Clan: no clan defined [family: Stap_Strp_toxin] (39)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,C   (A2NTY6_MOUSE | A2NTY6)

Chain B,D   (D0EMB6_STAAU | D0EMB6)
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        A2NTY6_MOUSE | A2NTY6: 3owe
        D0EMB6_STAAU | D0EMB6: 3owe
UniProtKB/TrEMBL
        A2NTY6_MOUSE | A2NTY6: 2e7l 2icw 2oi9 2pxy 2z31 2z35 3e2h 4y16 4y2d 4y4f 4y4h 4y4k 4zak

(-) Related Entries Specified in the PDB File

1xxg THE CRYSTAL STRUCTURE OF STAPHYLOCOCCAL ENTEROTOXIN G AND BINDING AFFINITY TO T-CELL RECEPTOR AND MHC CLASS II MOLECULE
2aq3 CRYSTAL STRUCTURE OF T-CELL RECEPTOR V BETA DOMAIN VARIANT COMPLEXED WITH SUPERANTIGEN SEC3
3owe CRYSTAL STRUCTURE OF STAPHYLOCOCCAL ENTEROTOXIN G (SEG) IN COMPLEX WITH A HIGH AFFINITY MUTANT MOUSE T-CELL RECEPTOR CHAIN