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(-) Description

Title :  ATOMIC RESOLUTION OF CRYSTAL STRUCTURE OF SEK
 
Authors :  K. Shi, M. Huseby, P. M. Schlievert, D. H. Ohlendorf, C. A. Earhart
Date :  24 Aug 08  (Deposition) - 30 Jun 09  (Release) - 04 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  0.92
Chains :  Asym./Biol. Unit :  A
Keywords :  Enterotoxin, Superantigen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Shi, M. Huseby, P. M. Schlievert, D. H. Ohlendorf, C. A. Earhart
Structural Studies Of An Emerging Pyrogenic Superantigen, Sek
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - STAPHYLOCOCCAL ENTEROTOXIN K
    Chains: A
    Engineered: YES
    Gene: SEK, SACOL0886
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1IOD5Ligand/IonIODIDE ION
2ZN1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:169 , HIS A:208 , ASP A:210 , HOH A:3240BINDING SITE FOR RESIDUE ZN A 1001
2AC2SOFTWAREGLY A:152 , HIS A:153 , PRO A:189 , HOH A:3067BINDING SITE FOR RESIDUE IOD A 2001
3AC3SOFTWAREASN A:138 , HIS A:142 , HIS A:153 , TYR A:158 , HOH A:3083 , HOH A:3412BINDING SITE FOR RESIDUE IOD A 2002
4AC4SOFTWARELYS A:156 , ASN A:162BINDING SITE FOR RESIDUE IOD A 2003
5AC5SOFTWAREALA A:84 , HOH A:3414BINDING SITE FOR RESIDUE IOD A 2004
6AC6SOFTWARETHR A:175 , PHE A:176 , SER A:177 , HOH A:3066BINDING SITE FOR RESIDUE IOD A 2005

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3EA6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EA6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EA6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EA6)

(-) Exons   (0, 0)

(no "Exon" information available for 3EA6)

(-) Sequences/Alignments

Asymmetric/Biological 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:215
 aligned with Q93CC5_STAAU | Q93CC5 from UniProtKB/TrEMBL  Length:242

    Alignment length:215
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235     
         Q93CC5_STAAU    26 DIGIDNLRNFYTKKDFVDLKDVKDNDTPIANQLQFSNESYDLISESKDFNKFSNFKGKKLDVFGISYNGQCNTKYIYGGVTATNEYLDKSRNIPINIWINGNHKTISTNKVSTNKKFVTAQEIDVKLRKYLQEEYNIYGHNGTKKGEEYGHKSKFYSGFNIGKVTFHLNNNDTFSYDLFYTGDDGLPKSFLKIYEDNKTVESEKFHLDVDISYKE 240
               SCOP domains d3ea6a1 A:3-86 automated matches                                                    d3ea6a2 A:87-217 automated matches                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh...eeeeeee........eeeee....eeeee..hhhhhhhhh..eeeeee.eee....eeeee..eee...eeeeeee..eeeee..eeeee.....eeee.eeehhhhhhhhhhhhhhhhh.........hhhhh..........eeeeeeee....eeeee........hhhhhhhhhh...eee...eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ea6 A   3 DIGIDNLRNFYTKKDFVDLKDVKDNDTPIANQLQFSNESYDLISESKDFNKFSNFKGKKLDVFGISYNGQCNTKYIYGGVTATNEYLDKSRNIPINIWINGNHKTISTNKVSTNKKFVTAQEIDVKLRKYLQEEYNIYGHNGTKKGEEYGHKSKFYSGFNIGKVTFHLNNNDTFSYDLFYTGDDGLPKSFLKIYEDNKTVESEKFHLDVDISYKE 217
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212
   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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3EA6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EA6)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q93CC5_STAAU | Q93CC5)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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
        Q93CC5_STAAU | Q93CC5: 2ntt

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