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(-) Description

Title :  C-TERMINAL DOMAIN OF ENDOLYSIN FROM PHAGE CD27L IS A TRIGGER AND RELEASE FACTOR
 
Authors :  M. Dunne, H. D. T. Mertens, V. Garefalaki, C. M. Jeffries, A. Thompson, E D. I. Svergun, M. J. Mayer, A. Narbad, R. Meijers
Date :  17 Mar 14  (Deposition) - 06 Aug 14  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.24
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,F  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  B (1x),E (1x)
Biol. Unit 4:  B (1x),E (1x)
Keywords :  Hydrolase, Bacterial Lysis, Bacteriophage, Autoproteolysis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Dunne, H. D. T. Mertens, V. Garefalaki, C. M. Jeffries, A. Thompson, E. A. Lemke, D. I. Svergun, M. J. Mayer, A. Narbad, R. Meijers
The Cd27L And Ctp1L Endolysins Targeting Clostridia Contain A Built-In Trigger And Release Factor.
Plos Pathog. V. 10 04228 2014
PubMed-ID: 25058163  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1004228

(-) Compounds

Molecule 1 - ENDOLYSIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET15
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN, RESIDUES 186-270
    Organism Scientific: CLOSTRIDIUM PHAGE PHICD27
    Organism Taxid: 559189

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A    F
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):  B (1x)  E (1x) 
Biological Unit 4 (1x):  B (1x)  E (1x) 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4CU5)

(-) Sites  (0, 0)

(no "Site" information available for 4CU5)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4CU5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4CU5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4CU5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4CU5)

(-) Exons   (0, 0)

(no "Exon" information available for 4CU5)

(-) 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:85
 aligned with B6SBV8_9CAUD | B6SBV8 from UniProtKB/TrEMBL  Length:270

    Alignment length:85
                                   195       205       215       225       235       245       255       265     
         B6SBV8_9CAUD   186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhh.....eeeee.hhh....eeeeeeehhhhhhhhhhh.....eee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 4cu5 A 186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
                                   195       205       215       225       235       245       255       265     


Chain B from PDB  Type:PROTEIN  Length:85
 aligned with B6SBV8_9CAUD | B6SBV8 from UniProtKB/TrEMBL  Length:270

    Alignment length:85
                                   195       205       215       225       235       245       255       265     
         B6SBV8_9CAUD   186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhh......eeeee.hhh....eeeeeeehhhhhhhh........eee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 4cu5 B 186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
                                   195       205       215       225       235       245       255       265     


Chain C from PDB  Type:PROTEIN  Length:85
 aligned with B6SBV8_9CAUD | B6SBV8 from UniProtKB/TrEMBL  Length:270

    Alignment length:85
                                   195       205       215       225       235       245       255       265     
         B6SBV8_9CAUD   186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeehhhhhhhhhhhhhhh.....eeeee.hhh....eeeeeeehhhhhhhhh.......eee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 4cu5 C 186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
                                   195       205       215       225       235       245       255       265     


Chain D from PDB  Type:PROTEIN  Length:85
 aligned with B6SBV8_9CAUD | B6SBV8 from UniProtKB/TrEMBL  Length:270

    Alignment length:85
                                   195       205       215       225       235       245       255       265     
         B6SBV8_9CAUD   186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh....eeeee.hhh....eeeeeeehhhhhhhhh.......eee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 4cu5 D 186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
                                   195       205       215       225       235       245       255       265     


Chain E from PDB  Type:PROTEIN  Length:85
 aligned with B6SBV8_9CAUD | B6SBV8 from UniProtKB/TrEMBL  Length:270

    Alignment length:85
                                   195       205       215       225       235       245       255       265     
         B6SBV8_9CAUD   186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeehhhhhhhhhhhhhhhh....eeeee.hhh....eeeeeeehhhhhhhh........eee...hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 4cu5 E 186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
                                   195       205       215       225       235       245       255       265     


Chain F from PDB  Type:PROTEIN  Length:85
 aligned with B6SBV8_9CAUD | B6SBV8 from UniProtKB/TrEMBL  Length:270

    Alignment length:85
                                   195       205       215       225       235       245       255       265     
         B6SBV8_9CAUD   186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeehhhhhhhhhhhhhh......eeeee.hhh....eeeeeeehhhhhhhhhhh.....eee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 4cu5 F 186 MYKHTIVYDGEVDKISATVVGWGYNDGKILICDIKDYVPGQTQNLYVVGGGACEKISSITKEKFIMIKGNDRFDTLYKALDFINR 270
                                   195       205       215       225       235       245       255       265
   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 4CU5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4CU5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4CU5)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (B6SBV8_9CAUD | B6SBV8)
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: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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 Related Entries

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UniProtKB/TrEMBL
        B6SBV8_9CAUD | B6SBV8: 3qay

(-) Related Entries Specified in the PDB File

4cu2 C-TERMINAL DOMAIN OF CTP1L ENDOLYSIN MUTANT V195P THAT REDUCES AUTOPROTEOLYSIS