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(-) Description

Title :  SOLUTION STRUCTURE OF THE PLYG CATALYTIC DOMAIN
 
Authors :  B. F. Volkman, J. S. Dias, F. C. Peterson
Date :  01 Oct 10  (Deposition) - 12 Oct 11  (Release) - 12 Oct 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
NMR Structure *:  A  (1x)
Keywords :  Bacillus Anthracis Gamma-Phage Endolysin, Plyg, Amidase-2 Family, Zn- Dependent Peptidoglycan Amidase, Catalytic Domain, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. S. Dias, F. C. Peterson, B. F. Volkman
Tbd
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - N-ACETYLMURAMOYL-L-ALANINE AMIDASE
    Chains: A
    EC Number: 3.5.1.28
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAD18
    Expression System Strain: XL1 BLUE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CATALYTIC DOMAIN, RESIDUES 1-165
    Gene: PLYG, GAMMALSU_0017, GAMMAUSAM_0017
    Organism Scientific: BACILLUS PHAGE GAMMA
    Organism Taxid: 347962

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x): A
NMR Structure * (1x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION
NMR Structure * (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:29 , HIS A:129 , CYS A:137BINDING SITE FOR RESIDUE ZN A 166

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2L47)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2L47)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2L47)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2L47)

(-) Exons   (0, 0)

(no "Exon" information available for 2L47)

(-) Sequences/Alignments

NMR Structure
   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:165
 aligned with Q8LTE6_9CAUD | Q8LTE6 from UniProtKB/TrEMBL  Length:233

    Alignment length:165
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160     
         Q8LTE6_9CAUD     1 MEIQKKLVDPSKYGTKCPYTMKPKYITVHNTYNDAPAENEVSYMISNNNEVSFHIAVDDKKAIQGIPLERNAWACGDGNGSGNRQSISVEICYSKSGGDRYYKAEDNAVDVVRQLMSMYNIPIENVRTHQSWSGKYCPHRMLAEGRWGAFIQKVKNGNVATTSPT 165
               SCOP domains d2l47a_ A: automated matches                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...hhhhhhhhh.......eeeeee.....hhhhhhhhhh.........eee....eee................hhhhheeeeee......hhhhhhhhhhhhhhhhhhhhhhh.hhh.eee.........hhhhhhh.hhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2l47 A   1 MEIQKKLVDPSKYGTKCPYTMKPKYITVHNTYNDAPAENEVSYMISNNNEVSFHIAVDDKKAIQGIPLERNAWACGDGNGSGNRQSISVEICYSKSGGDRYYKAEDNAVDVVRQLMSMYNIPIENVRTHQSWSGKYCPHRMLAEGRWGAFIQKVKNGNVATTSPT 165
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 1)

NMR Structure
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2L47)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2L47)

(-) Gene Ontology  (4, 4)

NMR Structure(hide GO term definitions)
Chain A   (Q8LTE6_9CAUD | Q8LTE6)
molecular function
    GO:0008745    N-acetylmuramoyl-L-alanine amidase activity    Catalysis of the hydrolysis of the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell-wall glycopeptides.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0044659    cytolysis by virus of host cell    The killing by a virus of a cell in its host organism by means of the rupture of cell membranes and the loss of cytoplasm.
    GO:0009253    peptidoglycan catabolic process    The chemical reactions and pathways resulting in the breakdown of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.

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  2l47
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  3.5.1.28
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 Related Entries

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

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        Q8LTE6_9CAUD | Q8LTE6: 2l48

(-) Related Entries Specified in the PDB File

2l48