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(-) Description

Title :  GSPB
 
Authors :  T. M. Pyburn, T. M. Iverson
Date :  15 Jan 11  (Deposition) - 10 Aug 11  (Release) - 24 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  X
Keywords :  Carbohydrate/Sugar Binding, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. M. Pyburn, B. A. Bensing, Y. Q. Xiong, B. J. Melancon, T. M. Tomasiak, N. J. Ward, V. Yankovskaya, K. M. Oliver, G. Cecchini, G. A. Sulikowski M. J. Tyska, P. M. Sullam, T. M. Iverson
A Structural Model For Binding Of The Serine-Rich Repeat Adhesin Gspb To Host Carbohydrate Receptors.
Plos Pathog. V. 7 02112 2011
PubMed-ID: 21765814  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1002112

(-) Compounds

Molecule 1 - PLATELET BINDING PROTEIN GSPB
    Chains: X
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 245-604
    Gene: GSPB
    Mutation: YES
    Organism Scientific: STREPTOCOCCUS GORDONII
    Organism Taxid: 1302

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : X

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
2HDZ1Ligand/IonNITROGEN MOLECULE
3K1Ligand/IonPOTASSIUM ION
4NA1Ligand/IonSODIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP X:399 , GLU X:401 , ASP X:427 , ASN X:428 , ASP X:490BINDING SITE FOR RESIDUE K X 1
2AC2SOFTWAREHOH X:49 , ASN X:406 , VAL X:407 , PRO X:408 , THR X:500 , ASN X:504 , HOH X:639BINDING SITE FOR RESIDUE GOL X 605
3AC3SOFTWAREASN X:347 , ASP X:348 , THR X:349 , GLN X:561 , HOH X:678BINDING SITE FOR RESIDUE GOL X 606
4AC4SOFTWAREHOH X:41 , GLU X:401 , ARG X:402 , VAL X:404 , THR X:426 , ASP X:427 , ASN X:428 , ALA X:506 , LYS X:509 , ALA X:602 , HOH X:750BINDING SITE FOR RESIDUE GOL X 607
5AC5SOFTWAREHOH X:61 , TRP X:441 , ARG X:449 , TYR X:482 , ARG X:484 , HOH X:691BINDING SITE FOR RESIDUE HDZ X 608
6AC6SOFTWAREHOH X:7 , HOH X:190 , PHE X:432 , LEU X:434 , HOH X:756 , HOH X:757 , HOH X:758BINDING SITE FOR RESIDUE NA X 609

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3QC5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3QC5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QC5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3QC5)

(-) Exons   (0, 0)

(no "Exon" information available for 3QC5)

(-) 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 X from PDB  Type:PROTEIN  Length:352
 aligned with GSPB_STRGN | Q939N5 from UniProtKB/Swiss-Prot  Length:3072

    Alignment length:359
                                   255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595         
           GSPB_STRGN   246 AVTESAPNVEYHDVKGDMIQSVTTSFDDTSRLLTWTINLTPRQVKSNLGALVSISGNQETRTVTINGKNAANGGVYNSGGAWNLYTGESVNNNVLRITTQVNDTGGEVKLGLRLVTSDKKITKTNLPLEFSQVAATTNGSWDKAGYNTTIVEKDTERPVVNVPSEITVYRGESFEYFATVTDNSNAFDLAKTVVRWLYNNQPGRGTEWLQYSVTQVGNQLKVRIFGNVPIDTTIGDYTRYVVATDAAGNVNATQTEMGNAAVDKTSVNGQFKLIIRFRIKTPENTVFVNNPNQLTEVEKNLVREAVKKSNPDLRAQDVLNSNYVTGITVSNNGTTTITYRDGRKDIIDGSKFIDTRAGS 604
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeee......eeeeeeeee....eeeeeeee.......eeeeeeee...eeeeeeee..ee.ee.-------..eeeeee....eeeeeeeee....eeeeeeeeeeee...........hhhhh.......eeeeeeeeee........eee...eeeee...eeeeeeeee.....eeeeeeeee..............eeeeeee..eeeeeeeee.......eeeeeeeeeee.......hhhhhhhhhhhh.....eeeeeee.........eee......hhhhhhhhhhhhhhhh...hhhhhhhhhhhhheee.....eeee.....eeee.....eee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qc5 X 246 AVTESAPNVEYHDVKGDMIQSVTTSFDDTSRLLTWTINLTPRQVKSNLGALVSISGNQETRTVTINGKNAANG-------AWNLYTGESVNNNVLRITTQVNDTGGEVKLGLRLVTSDKKITKTNLPLEFSQVAATTNGSWDKAGYNTTIVEKDTERPVVNVPSEITVYRGESFEYFATVTDNSNAFDLAKTVVRWLYSNQPGRGTEWLQYSVTQVGNQLKVRIFGNVPIDTTIGDYTRYVVATDAAGNVNATQTEMGNAAVDKTSVNGQFKLIIRFRIKTPENTVFVNNPNQLTEVEKNLVREAVKKSNPDLRAQDVLNSNYVTGITVSNNGTTTITYRDGRKDIIDGSKFIDTRAGS 604
                                   255       265       275       285       295       305       315  |      -|      335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595         
                                                                                                  318     326
   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  (0, 0)

(no "SCOP Domain" information available for 3QC5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QC5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3QC5)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain X   (GSPB_STRGN | Q939N5)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
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
        GSPB_STRGN | Q939N5: 3qc6 5iuc

(-) Related Entries Specified in the PDB File

3qc6 3qd1