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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BACTERIOCIN SYRINGACIN M FROM PSEUDOMONAS SYRINGAE PV. TOMATO DC3000
 
Authors :  A. W. Roszak, R. Grinter, J. R. Cogdell, D. Walker
Date :  06 Jul 12  (Deposition) - 03 Oct 12  (Release) - 28 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.83
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Phosphatase, Divalent Cation Binding, Lipid Ii Binding, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Grinter, A. W. Roszak, R. J. Cogdell, J. J. Milner, D. Walker
The Crystal Structure Of The Lipid Ii-Degrading Bacteriocin Syringacin M Suggests Unexpected Evolutionary Relationships Between Colicin M-Like Bacteriocins.
J. Biol. Chem. V. 287 38876 2012
PubMed-ID: 22995910  |  Reference-DOI: 10.1074/JBC.M112.400150

(-) Compounds

Molecule 1 - BACTERIOCIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETMDC
    Expression System Strain: BL21 DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PET21A
    Gene: PSPTO_0572
    Organism Scientific: PSEUDOMONAS SYRINGAE PV. TOMATO
    Organism Taxid: 223283
    Strain: DC3000

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO2Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:202 , ASN A:204 , ASP A:232 , EDO A:302 , HOH A:423BINDING SITE FOR RESIDUE CA A 301
2AC2SOFTWAREASN A:204 , ASP A:232 , VAL A:233 , CA A:301 , HOH A:423BINDING SITE FOR RESIDUE EDO A 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FZM)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ser A:30 -Ser A:31
2Ser A:218 -Gly A:219

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FZM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FZM)

(-) Exons   (0, 0)

(no "Exon" information available for 4FZM)

(-) 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:276
                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......................................hhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......................hhhhhhhhhhhhh....ee.hhhhh....hhhhhhhhhhhhh........eeeeeeeee.hhhhhhhhhhhheeeeeeeeeeee.....eeeeeeeee..eee..hhhhhhhhhhhhhhhhhhh.....eeee....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fzm A   2 PIELPPTYITPYPEISAGGNGTYRGQDLSSGQSFPRGMQNPVATVLLLQGDLYCSPNCLATFQDQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIKYPPGNHVLSGGLMTPFHALAHGMFGLGAPLTFPIQNVGLNVDIRGIPDVMNVIQSARPVGTSSLDVNFAYDVGKDSNASWLTLGNITLRLVGTIDKNASGAWTFSGEIRAFNDVYDANPSNHRGWLGENLTSLLSAVPFTSYSIEIPGSLPVTVSGNL 277
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271
   Legend:   → Mismatch (orange background)
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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 4FZM)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FZM)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FZM)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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  4fzm
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  Q88A25_PSESM | Q88A25
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 Related Entries

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

UniProtKB/TrEMBL
        Q88A25_PSESM | Q88A25: 4fzl 4fzn

(-) Related Entries Specified in the PDB File

2xmx CRYSTAL STRUCTURE OF THE BACTERIOCIN COLICIN M
4fzl
4fzn