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(-) Description

Title :  STRUCTURE OF THE INACTIVE PESTICIN E178A MUTANT
 
Authors :  K. Zeth, S. I. Patzer, R. Albrecht, V. Braun
Date :  25 Apr 12  (Deposition) - 02 May 12  (Release) - 18 Jul 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hydrolase, Muramidase, Inactive Mutant (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. I. Patzer, R. Albrecht, V. Braun, K. Zeth
Structure And Mechanistic Studies Of Pesticin, A Bacterial Homolog Of Phage Lysozymes.
J. Biol. Chem. V. 287 23381 2012
PubMed-ID: 22593569  |  Reference-DOI: 10.1074/JBC.M112.362913

(-) Compounds

Molecule 1 - PESTICIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector: PET
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: YERSINIA PESTIS
    Organism Taxid: 632

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4ARP)

(-) Sites  (0, 0)

(no "Site" information available for 4ARP)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val A:13 -Pro A:14
2Ser A:49 -Asn A:50
3Ala B:15 -Phe B:16
4Ser B:49 -Asn B:50

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ARP)

(-) 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:340
 aligned with Q57159_YERPE | Q57159 from UniProtKB/TrEMBL  Length:357

    Alignment length:345
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352     
         Q57159_YERPE    13 VPAFLFSGSTLSSYRPNFEANSITIALPHYVDLPGRSNFKLMYIMGFPIDTEMEKDSEYSNKIRQESKISKTEGTVSYEQKITVETGQEKDGVKVYRVMVLEGTIAESIEHLDKKENEDILNNNRNRIVLADNTVINFDNISQLKEFLRRSVNIVDHDIFSSNGFEGFNPTSHFPSNPSSDYFNSTGVTFGSGVDLGQRSKQDLLNDGVPQYIADRLDGYYMLRGKEAYDKVRTAPLTLSDNEAHLLSNIYIDKFSHKIEGLFNDANIGLRFSDLPLRTRTALVSIGYQKGFKLSRTAPTVWNKVIAKDWNGLVNAFNNIVDGMSDRRKREGALVQKDIDSGLLK 357
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee.....-----......eeee.......eeeee..eeeeeee............................eeeeeeeee..eeeeeeeeeeehhhhhhhhh....hhhhhhhheeeee.....eeee.hhhhhhhhhhhhhh..hhhhhh.......eeeee........hhhhh..eee..ee....hhhhhhhh..hhhhhhhh.......hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4arp A  13 VPAFLFSGSTLSSYRPN-----ITIALPHYVDLPGRSNFKLMYIMGFPIDTEMEKDSEYSNKIRQESKISKTEGTVSYEQKITVETGQEKDGVKVYRVMVLEGTIAESIEHLDKKENEDILNNNRNRIVLADNTVINFDNISQLKEFLRRSVNIVDHDIFSSNGFAGFNPTSHFPSNPSSDYFNSTGVTFGSGVDLGQRSKQDLLNDGVPQYIADRLDGYYMLRGKEAYDKVRTAPLTLSDNEAHLLSNIYIDKFSHKIEGLFNDANIGLRFSDLPLRTRTALVSIGYQKGFKLSRTAPTVWNKVIAKDWNGLVNAFNNIVDGMSDRRKREGALVQKDIDSGLLK 357
                                    22      |  -  |     42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352     
                                           29    35                                                                                                                                                                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:340
 aligned with Q57159_YERPE | Q57159 from UniProtKB/TrEMBL  Length:357

    Alignment length:345
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352     
         Q57159_YERPE    13 VPAFLFSGSTLSSYRPNFEANSITIALPHYVDLPGRSNFKLMYIMGFPIDTEMEKDSEYSNKIRQESKISKTEGTVSYEQKITVETGQEKDGVKVYRVMVLEGTIAESIEHLDKKENEDILNNNRNRIVLADNTVINFDNISQLKEFLRRSVNIVDHDIFSSNGFEGFNPTSHFPSNPSSDYFNSTGVTFGSGVDLGQRSKQDLLNDGVPQYIADRLDGYYMLRGKEAYDKVRTAPLTLSDNEAHLLSNIYIDKFSHKIEGLFNDANIGLRFSDLPLRTRTALVSIGYQKGFKLSRTAPTVWNKVIAKDWNGLVNAFNNIVDGMSDRRKREGALVQKDIDSGLLK 357
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee.....-----......eeee.......eeeee..eeeeeee............................eeeeeeeee..eeeeeeeeeeehhhhhhhhhhhhhhhhhhhhheeeee.....eeee.hhhhhhhhhhhhh...hhhhhh.......eeeee........hhhhh..eee..ee....hhhhhhhh..hhhhhhhh......hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4arp B  13 VPAFLFSGSTLSSYRPN-----ITIALPHYVDLPGRSNFKLMYIMGFPIDTEMEKDSEYSNKIRQESKISKTEGTVSYEQKITVETGQEKDGVKVYRVMVLEGTIAESIEHLDKKENEDILNNNRNRIVLADNTVINFDNISQLKEFLRRSVNIVDHDIFSSNGFAGFNPTSHFPSNPSSDYFNSTGVTFGSGVDLGQRSKQDLLNDGVPQYIADRLDGYYMLRGKEAYDKVRTAPLTLSDNEAHLLSNIYIDKFSHKIEGLFNDANIGLRFSDLPLRTRTALVSIGYQKGFKLSRTAPTVWNKVIAKDWNGLVNAFNNIVDGMSDRRKREGALVQKDIDSGLLK 357
                                    22      |  -  |     42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352     
                                           29    35
   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  (0, 0)

(no "SCOP Domain" information available for 4ARP)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q57159_YERPE | Q57159)
molecular function
    GO:0003796    lysozyme activity    Catalysis of the hydrolysis of the beta-(1->4) linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan.

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  Cis Peptide Bonds
    Ala B:15 - Phe B:16   [ RasMol ]  
    Ser A:49 - Asn A:50   [ RasMol ]  
    Ser B:49 - Asn B:50   [ RasMol ]  
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  4arp
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  Q57159_YERPE | Q57159
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 Related Entries

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

UniProtKB/TrEMBL
        Q57159_YERPE | Q57159: 4aqn 4arj 4arl 4arm 4arq 4epf 4epi 4exm

(-) Related Entries Specified in the PDB File

4aqn CRYSTAL STRUCTURE OF PESTICIN FROM Y. PESTIS
4arj CRYSTAL STRUCTURE OF A PESTICIN (TRANSLOCATION AND RECEPTOR BINDING DOMAIN) FROM Y. PESTIS AND T4- LYSOZYME CHIMERA
4arl STRUCTURE OF THE INACTIVE PESTICIN D207A MUTANT
4arm STRUCTURE OF THE INACTIVE PESTICIN T201A MUTANT
4arq STRUCTURE OF THE INACTIVE PESTICIN T201A MUTANT