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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF STREPTOCOCCUS GORDONII SURFACE PROTEIN SSPB
 
Authors :  N. Forsgren, K. Persson
Date :  27 Aug 09  (Deposition) - 16 Feb 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Cell Adhesion, Cell Wall, Antigen I/Ii, Peptidoglycan-Anchor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Forsgren, R. J. Lamont, K. Persson
Two Intramolecular Isopeptide Bonds Are Identified In The Crystal Structure Of The Streptococcus Gordonii Sspb C-Terminal Domain.
J. Mol. Biol. V. 397 740 2010
PubMed-ID: 20138058  |  Reference-DOI: 10.1016/J.JMB.2010.01.065

(-) Compounds

Molecule 1 - AGGLUTININ RECEPTOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET-VECTOR
    Fragment: C-TERMINAL DOMAIN, RESIDUES 1083-1413
    Organism Scientific: STREPTOCOCCUS GORDONII
    Organism Taxid: 1302
    Other Details: ISOPEPTIDE BOND BETWEEN LYS 1259 AND ASN 1393
    Strain: M5
    Synonym: SSP-5, SSPB

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2MG1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:1133 , TYR A:1134 , GLU A:1136 , LYS A:1186 , ALA A:1188 , HOH A:2077BINDING SITE FOR RESIDUE CA A2414
2AC2SOFTWAREASP A:1308 , TYR A:1309 , GLN A:1311 , ASN A:1354 , GLY A:1355 , HOH A:2210BINDING SITE FOR RESIDUE CA A2415
3AC3SOFTWAREHOH A:2103 , HOH A:2104BINDING SITE FOR RESIDUE MG A2416

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WQS)

(-) 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:333
 aligned with SSP5_STRGN | P16952 from UniProtKB/Swiss-Prot  Length:1500

    Alignment length:333
                                  1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190      1200      1210      1220      1230      1240      1250      1260      1270      1280      1290      1300      1310      1320      1330      1340      1350      1360      1370      1380      1390      1400      1410   
          SSP5_STRGN   1081 TKVNKNKEGLNIDGKEVLAGSTNYYELTWDLDQYKGDKSSKEAIQNGFYYVDDYPEEALDVRPDLVKVADEKGNQVSGVSVQQYDSLEAAPKKVQDLLKKANITVKGAFQLFSADNPEEFYKQYVATGTSLVITDPMTVKSEFGKTGGKYENKAYQIDFGNGYATEVVVNNVPKITPKKDVTVSLDPTSENLDGQTVQLYQTFNYRLIGGLIPQNHSEELEDYSFVDDYDQAGDQYTGNYKTFSSLNLTMKDGSVIKAGTDLTSQTTAETDATNGIVTVRFKEDFLQKISLDSPFQAETYLQMRRIAIGTFENTYVNTVNKVAYASNTVRTTT 1413
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..................eeeeeeee.hhhhh...hhhhhhhh..eeeee.....eee.hhhh.............eeeee......hhhhhhhhhhh.......eeeee..hhhhhhhhh......eeeeeeeee..........eeeeeeee......eeeeeee.......eeeee...................eeeeeee..............eeeee.......eeeeeeeeee...ee.....ee.....hhh.eeeee......eeeeehhhhhh.........eeeeeeee......eee..eeee..eeee...eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2wqs A 1081 AMVNKNKEGLNIDGKEVLAGSTNYYELTWDLDQYKGDKSSKEAIQNGFYYVDDYPEEALDVRPDLVKVADEKGNQVSGVSVQQYDSLEAAPKKVQDLLKKANITVKGAFQLFSADNPEEFYKQYVATGTSLVITDPMTVKSEFGKTGGKYENKAYQIDFGNGYATEVVVNNVPKITPKKDVTVSLDPTSENLDGQTVQLYQTFNYRLIGGLIPQNHSEELEDYSFVDDYDQAGDQYTGNYKTFSSLNLTMKDGSVIKAGTDLTSQTTAETDATNGIVTVRFKEDFLQKISLDSPFQAETYLQMRRIAIGTFENTYVNTVNKVAYASNTVRTTT 1413
                                  1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190      1200      1210      1220      1230      1240      1250      1260      1270      1280      1290      1300      1310      1320      1330      1340      1350      1360      1370      1380      1390      1400      1410
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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 2WQS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2WQS)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SSP5_STRGN | P16952)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SSP5_STRGN | P16952: 2wd6 2woy 2wza

(-) Related Entries Specified in the PDB File

2wd6 CRYSTAL STRUCTURE OF THE VARIABLE DOMAIN OF THE STREPTOCOCCUS GORDONII SURFACE PROTEIN SSPB
2woy CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF STREPTOCOCCUS GORDONII SURFACE PROTEIN SSPB
2wza TWO INTRAMOLECULAR ISOPEPTIDE BONDS ARE IDENTIFIED IN THE CRYSTAL STRUCTURE OF THE STREPTOCOCCUS GORDONII SSPB C-TERMINAL DOMAIN