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(-) Description

Title :  ANTI-GROUP A STREPTOCOCCAL VACCINE EPITOPE: STRUCTURE, STABILITY AND ITS ABILITY TO INTERACT WITH HLA CLASS II MOLECULES
 
Authors :  L. Guilherme, M. P. Alba, M. E. Patarroyo, J. Kalil
Date :  16 Jun 09  (Deposition) - 16 Jun 10  (Release) - 23 Mar 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A
NMR Structure *:  A  (1x)
Keywords :  S. Pyogenes, M5 Protein, Synthetic Peptide Vaccine, Cell Wall, Peptidoglycan-Anchor, Phagocytosis, Secreted, Virulence, Unknown Function, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Guilherme, M. P. Alba, F. M. Ferreira, S. E. Oshiro, F. Higa, M. E. Patarroyo, J. Kalil
Anti-Group A Streptococcal Vaccine Epitope: Structure, Stability, And Its Ability To Interact With Hla Class Ii Molecules.
J. Biol. Chem. V. 286 6989 2011
PubMed-ID: 21169359  |  Reference-DOI: 10.1074/JBC.M110.132118

(-) Compounds

Molecule 1 - M PROTEIN, SEROTYPE 5
    Chains: A
    Engineered: YES
    Fragment: UNP RESIDUES 300-354
    Other Details: A 55-MER-LONG SYNTHETIC PEPTIDE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1
NMR Structure : A
NMR Structure * (1x): A

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 1)
No.NameCountTypeFull Name
1NH21Mod. Amino AcidAMINO GROUP
NMR Structure * (1, 1)
No.NameCountTypeFull Name
1NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (0, 0)

(no "Site" information available for 2KK9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2KK9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2KK9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2KK9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2KK9)

(-) Exons   (0, 0)

(no "Exon" information available for 2KK9)

(-) Sequences/Alignments

NMR Structure
   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:56
 aligned with M5_STRP5 | P02977 from UniProtKB/Swiss-Prot  Length:492

    Alignment length:56
                                   309       319       329       339       349      
             M5_STRP5   300 KGLRRDLDASREAKKQLEAEQQKLEEQNKISEASRKGLRRDLDASREAKKQVEKAL 355
               SCOP domains -------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------- CATH domains
               Pfam domains -----------M-2kk9A01 A:12-32    ------------------------ Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhh...................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 2kk9 A   1 KGLRRDLDASREAKKQLEAEQQKLEEQNKISEASRKGLRRDLDASREAKKQVEKAx  56
                                    10        20        30        40        50     |
                                                                                  56-NH2
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2KK9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2KK9)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: M] (1)

(-) Gene Ontology  (5, 5)

NMR Structure(hide GO term definitions)
Chain A   (M5_STRP5 | P02977)
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.
    GO:0006909    phagocytosis    An endocytosis process that results in the engulfment of external particulate material by phagocytes. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles.
cellular component
    GO:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    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.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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