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(-) Description

Title :  CRYSTAL STRUCTURE OF AN ENTEROCOCCUS FAECIUM PEPTIDOGLYCAN BINDING PROTEIN AT 2.4 A RESOLUTION
 
Authors :  S. Biarrotte-Sorin, J. -E. Hugonnet, J. -L. Mainardi, L. Gutmann, L. Rice, M. Arthur, C. Mayer
Date :  07 Apr 05  (Deposition) - 28 Mar 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  L, D-Transpeptidation, Peptidoglycan, Beta-Lactam Insensitive Transpeptidase, Antibiotic Resistance, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Biarrotte-Sorin, J. E. Hugonnet, V. Delfosse, J. L. Mainardi, L. Gutmann, M. Arthur, C. Mayer
Crystal Structure Of A Novel Beta-Lactam-Insensitive Peptidoglycan Transpeptidase.
J. Mol. Biol. V. 359 533 2006
PubMed-ID: 16647082  |  Reference-DOI: 10.1016/J.JMB.2006.03.014
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - L,D-TRANSPEPTIDASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET2818
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: LDTFM
    Organism Scientific: ENTEROCOCCUS FAECIUM
    Organism Taxid: 1352

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
2ZN1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:421 , SER A:439BINDING SITE FOR RESIDUE ZN A 467
2AC2SOFTWAREMET A:223 , ASN A:224BINDING SITE FOR RESIDUE SO4 A 763

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1ZAT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1ZAT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1ZAT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1ZAT)

(-) Exons   (0, 0)

(no "Exon" information available for 1ZAT)

(-) 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:248
 aligned with Q3Y185_ENTFC | Q3Y185 from UniProtKB/TrEMBL  Length:466

    Alignment length:250
                                   226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466
         Q3Y185_ENTFC   217 KEQLASMNAIANVKATYSINGETFQIPSSDIMSWLTYNDGKVDLDTEQVRQYVTDLGTKYNTSTNDTKFKSTKRGEVTVPVGTYSWTIQTDSETEALKKAILAGQDFTRSPIVQGGTTADHPLIEDTYIEVDLENQHMWYYKDGKVALETDIVSGKPTTPTPAGVFYVWNKEEDATLKGTNDDGTPYESPVNYWMPIDWTGVGIHDSDWQPEYGGDLWKTRGSHGCINTPPSVMKELFGMVEKGTPVLVF 466
               SCOP domains d1zata2 A:217-338 L,D-transpeptidase, pre-catalytic domain                                                                d1zata1 A:339-466 L,D-transpeptidase, C-terminal, catalytic   domain                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains PG_binding_4-1zatA02 A:217-325                                                                               ----------------YkuD-1zatA01 A:342-465                                                                                                      - Pfam domains
         Sec.struct. author .hhhhhhhhhhhh.eeeee..eeee.hhhhhhhheeee..eeeehhhhhhhhhhhhhhhhh.....eeee.....eeee......eeehhhhhhhhhhhhhhhh..eee...eee............eeeee....eeeeee..eeeeeee............eeee....eeeee.....--......eeeeeee......eeee.........hhhhhhh....eeehhhhhhhhhhhh....eeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1zat A 217 KEQLASMNAIANVKATYSINGETFQIPSSDIMSWLTYNDGKVDLDTEQVRQYVTDLGTKYNTSTNDTKFKSTKRGEVTVPVGTYSWTIQTDSETEALKKAILAGQDFTRSPIVQGGTTADHPLIEDTYIEVDLENQHMWYYKDGKVALETDIVSGKPTTPTPAGVFYVWNKEEDATLKGTN--GTPYESPVNYWMPIDWTGVGIHDSDWQPEYGGDLWKTRGSHGCINTPPSVMKELFGMVEKGTPVLVF 466
                                   226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396|  |   406       416       426       436       446       456       466
                                                                                                                                                                                                              397  |                                                                  
                                                                                                                                                                                                                 400
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1ZAT)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: YkuD (2)
(-)
Clan: no clan defined [family: PG_binding_4] (1)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q3Y185_ENTFC | Q3Y185)
molecular function
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    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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  1zat
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 Related Entries

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

UniProtKB/TrEMBL
        Q3Y185_ENTFC | Q3Y185: 2hkl 3zg4 3zgp

(-) Related Entries Specified in the PDB File

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