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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SUPERANTIGEN SMEZ-2 FROM STREPTOCOCCUS PYOGENES
 
Authors :  V. L. Arcus, T. Proft, J. A. Sigrell, H. M. Baker, J. D. Fraser, E. N. Baker
Date :  12 Apr 00  (Deposition) - 10 May 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta Grasp, Ob Fold, Superantigen Fold, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. L. Arcus, T. Proft, J. A. Sigrell, H. M. Baker, J. D. Fraser, E. N. Baker
Conservation And Variation In Superantigen Structure And Activity Highlighted By The Three-Dimensional Structures Of Two New Superantigens From Streptococcus Pyogenes.
J. Mol. Biol. V. 299 157 2000
PubMed-ID: 10860729  |  Reference-DOI: 10.1006/JMBI.2000.3725
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SUPERANTIGEN SMEZ-2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-2T
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: STREPTOCOCCUS PYOGENES
    Organism Taxid: 1314
    Strain: 2035

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1ET6)

(-) Sites  (0, 0)

(no "Site" information available for 1ET6)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1ET6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1ET6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1ET6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1ET6)

(-) Exons   (0, 0)

(no "Exon" information available for 1ET6)

(-) 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:201
 aligned with Q9RQQ5_STRPY | Q9RQQ5 from UniProtKB/TrEMBL  Length:209

    Alignment length:210
                             1                                                                                                                                                                                                                
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209
         Q9RQQ5_STRPY     - -LEVDNNSLLRNIYSTIVYEYSDIVIDFKTSHNLVTKKLDVRDARDFFINSEMDEYAANDFKTGDKIAVFSVPFDWNYLSKGKVTAYTYGGITPYQKTSIPKNIPVNLWINGKQISVPYNEISTNKTTVTAQEIDLKVRKFLIAQHQLYSSGSSYKSGRLVFHTNDNSDKYSFDLFYVGYRDKESIFKVYKDNKSFNIDKIGHLDIEIDS 209
               SCOP domains d1et6a1 A:1A-95 Streptococcal superantigen Smez-2                                                   d1et6a2 A:100-209 Streptococcal superantigen Smez-2                                                            SCOP domains
               CATH domains --1et6A01       1et6A02 A:16-95  [code=2.40.50.110, no name defined]                                1et6A01 A:2-15,A:100-209  [code=3.10.20.120, no name defined]                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh....eeeeeeeeeeee..eeee...eee..eeeeeeee.hhhhhh......eeeeee.eeeee.....eeeeeee..eee..----.ee..eeeee..eee.......ee...eeehhhhhhhhhhhhhhhh..........eeeeeee.-----..eee.......hhhhhhhhhh...eee.hhh.eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1et6 A  1A GLEVDNNSLLRNIYSTIVYEYSDIVIDFKTSHNLVTKKLDVRDARDFFINSEMDEYAANDFKTGDKIAVFSVPFDWNYLSKGKVTAYTYGGITPYQ----PKNIPVNLWINGKQISVPYNEISTNKTTVTAQEIDLKVRKFLIAQHQLYSSGSSYKSGRLVFHT-----KYSFDLFYVGYRDKESIFKVYKDNKSFNIDKIGHLDIEIDS 209
                            |        9        19        29        39        49        59        69        79        89     |   -|      109       119       129       139       149       159   |   169       179       189       199       209
                            |                                                                                             95  100                                                            163   169                                        
                           1A                                                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:201
 aligned with Q9RQQ5_STRPY | Q9RQQ5 from UniProtKB/TrEMBL  Length:209

    Alignment length:206
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203      
         Q9RQQ5_STRPY     4 DNNSLLRNIYSTIVYEYSDIVIDFKTSHNLVTKKLDVRDARDFFINSEMDEYAANDFKTGDKIAVFSVPFDWNYLSKGKVTAYTYGGITPYQKTSIPKNIPVNLWINGKQISVPYNEISTNKTTVTAQEIDLKVRKFLIAQHQLYSSGSSYKSGRLVFHTNDNSDKYSFDLFYVGYRDKESIFKVYKDNKSFNIDKIGHLDIEIDS 209
               SCOP domains d1et6b1 B:4-96 Streptococcal superantigen Smez-2                                             d1et6b2 B:97-209 Streptococcal superantigen Smez-2                                                                SCOP domains
               CATH domains 1et6B01     1et6B02 B:16-95  [code=2.40.50.110, no name defined]                            ----1et6B01 B:4-15,B:100-207  [code=3.10.20.120, no name defined]                                               -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh....eeeeeeeeeeee..eeee...eee..eeeeeeee.hhhhhh......eeeeee.eeeee.....eeeeeee..eee.......ee..eeeee..eee.......ee...eeehhhhhhhhhhhhhhhh..........eeeeeee.-----..eee.......hhhhhhhhhh...eee.hhh.eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1et6 B   4 DNNSLLRNIYSTIVYEYSDIVIDFKTSHNLVTKKLDVRDARDFFINSEMDEYAANDFKTGDKIAVFSVPFDWNYLSKGKVTAYTYGGITPYQKTSIPKNIPVNLWINGKQISVPYNEISTNKTTVTAQEIDLKVRKFLIAQHQLYSSGSSYKSGRLVFHT-----KYSFDLFYVGYRDKESIFKVYKDNKSFNIDKIGHLDIEIDS 209
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163     | 173       183       193       203      
                                                                                                                                                                                         163   169
   Legend:   → Mismatch (orange background)
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  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  (2, 4)

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

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1ET6)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9RQQ5_STRPY | Q9RQQ5)
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

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UniProtKB/TrEMBL
        Q9RQQ5_STRPY | Q9RQQ5: 1eu3

(-) Related Entries Specified in the PDB File

1et9 APO-SPE-H
1eu3 ZN-SMEZ-2
1eu4 ZN-SPE-H