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(-) Description

Title :  CRYSTAL STRUCTURE OF SALMONELLA TYPHIMURIUM PLIG, A PERIPLASMIC LYSOZYME INHIBITOR OF G-TYPE LYSOZYME
 
Authors :  S. Leysen, V. Theuwis, L. Vanderkelen, C. W. Michiels, S. V. Strelkov
Date :  28 Feb 12  (Deposition) - 13 Jun 12  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.78
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Lysozyme Inhibitor, G-Type Lysozyme Binding, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Leysen, L. Vanderkelen, K. Van Asten, S. Vanheuverzwijn, V. Theuwis, C. W. Michiels, S. V. Strelkov
Structural Characterization Of The Plig Lysozyme Inhibitor Family.
J. Struct. Biol. V. 180 235 2012
PubMed-ID: 22634186  |  Reference-DOI: 10.1016/J.JSB.2012.05.006

(-) Compounds

Molecule 1 - GIFSY-1 PROPHAGE PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETHSUL
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 23-133
    Gene: STM2610
    Organism Scientific: SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM
    Organism Taxid: 90371

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL-1Ligand/IonGLYCEROL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:65 , HOH A:418BINDING SITE FOR RESIDUE CL A 201
2AC2SOFTWAREASN A:68 , GLU A:69 , ALA A:71 , ASP A:72 , SER A:87 , HOH A:326BINDING SITE FOR RESIDUE GOL A 202
3AC3SOFTWAREGLN B:131BINDING SITE FOR RESIDUE CL B 201
4AC4SOFTWAREASN B:26 , TYR B:49 , GLU B:108 , LYS B:110 , HOH B:331 , HOH B:346BINDING SITE FOR RESIDUE GOL B 202
5AC5SOFTWAREASN C:26 , LYS C:110 , HOH C:392BINDING SITE FOR RESIDUE CL C 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4DY5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4DY5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4DY5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4DY5)

(-) Exons   (0, 0)

(no "Exon" information available for 4DY5)

(-) 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:111
 aligned with Q8ZMZ1_SALTY | Q8ZMZ1 from UniProtKB/TrEMBL  Length:133

    Alignment length:111
                                    32        42        52        62        72        82        92       102       112       122       132 
         Q8ZMZ1_SALTY    23 TGKNVNVEFDKGQNSARYSGVIKGYDYDTYNFQARKGQKVHVSISNEGADTYLFGPGISDSVDLSRYSSELDGNGQYTLPASGKYELKVLQTRNEARKNKAKKYSVNIQIK 133
               SCOP domains --------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee........eeeeeeeee...eeeeeeee....eeeeee....eeeeee.......ee.............ee....eeeeeeeeehhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 4dy5 A  23 TGKNVNVEFDKGQNSARYSGVIKGYDYDTYNFQARKGQKVHVSISNEGADTYLFGPGISDSVDLSRYSSELDGNGQYTLPASGKYELKVLQTRNEARKNKAKKYSVNIQIK 133
                                    32        42        52        62        72        82        92       102       112       122       132 


Chain B from PDB  Type:PROTEIN  Length:107
 aligned with Q8ZMZ1_SALTY | Q8ZMZ1 from UniProtKB/TrEMBL  Length:133

    Alignment length:110
                                    33        43        53        63        73        83        93       103       113       123       133
         Q8ZMZ1_SALTY    24 GKNVNVEFDKGQNSARYSGVIKGYDYDTYNFQARKGQKVHVSISNEGADTYLFGPGISDSVDLSRYSSELDGNGQYTLPASGKYELKVLQTRNEARKNKAKKYSVNIQIK 133
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...---..eeeeeeeee...eeeeeeee....eeeeee....eeeeee.......ee.............ee....eeeeeeeeehhhhhh...eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 4dy5 B  24 GKNVNVEF---QNSARYSGVIKGYDYDTYNFQARKGQKVHVSISNEGADTYLFGPGISDSVDLSRYSSELDGNGQYTLPASGKYELKVLQTRNEARKNKAKKYSVNIQIK 133
                                   | - |      43        53        63        73        83        93       103       113       123       133
                                  31  35                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:107
 aligned with Q8ZMZ1_SALTY | Q8ZMZ1 from UniProtKB/TrEMBL  Length:133

    Alignment length:110
                                    33        43        53        63        73        83        93       103       113       123       133
         Q8ZMZ1_SALTY    24 GKNVNVEFDKGQNSARYSGVIKGYDYDTYNFQARKGQKVHVSISNEGADTYLFGPGISDSVDLSRYSSELDGNGQYTLPASGKYELKVLQTRNEARKNKAKKYSVNIQIK 133
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....---.eeeeeeeee...eeeeeeee....eeeeee....eeeeee.......ee.............ee....eeeeeeeeehhhhhh...eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 4dy5 C  24 GKNVNVEFD---NSARYSGVIKGYDYDTYNFQARKGQKVHVSISNEGADTYLFGPGISDSVDLSRYSSELDGNGQYTLPASGKYELKVLQTRNEARKNKAKKYSVNIQIK 133
                                    |-  |     43        53        63        73        83        93       103       113       123       133
                                   32  36
   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 4DY5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4DY5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4DY5)

(-) Gene Ontology  (0, 0)

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4dy3 4dzg