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(-) Description

Title :  CATALYTIC DOMAIN OF THE ANTIMICROBIAL PEPTIDASE LYSOSTAPHIN FROM STAPHYLOCOCCUS SIMULANS CRYSTALLIZED IN THE ABSENCE OF PHOSPHATE
 
Authors :  I. Sabala, E. Jagielska, P. T. Bardelang, H. Czapinska, S. O. Dahms, J. A R. James, M. E. Than, N. R. Thomas, M. Bochtler
Date :  22 Jun 14  (Deposition) - 09 Jul 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.78
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Peptidase Family M23, Peptidoglycan Amidase, Metallopeptidase, Peptidoglycan, Hydrolase, Extracellular (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Sabala, E. Jagielska, P. T. Bardelang, H. Czapinska, S. O. Dahms, J. A. Sharpe, R. James, M. E. Than, N. R. Thomas, M. Bochtler
Crystal Structure Of The Antimicrobial Peptidase Lysostaphi From Staphylococcus Simulans.
Febs J. V. 281 4112 2014
PubMed-ID: 25039253  |  Reference-DOI: 10.1111/FEBS.12929

(-) Compounds

Molecule 1 - LYSOSTAPHIN
    Chains: A, B
    EC Number: 3.4.24.75
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: CATALYTIC DOMAIN, UNP RESIDUES 248-386
    Gene: LSS, U66883.1
    Organism Scientific: STAPHYLOCOCCUS SIMULANS
    Organism Taxid: 1286
    Strain: STAPHYLOCOCCUS SIMULANS BV. STAPHYLOLYTICUS
    Synonym: GLYCYL-GLYCINE ENDOPEPTIDASE

 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  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2ZN2Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1EDO-1Ligand/Ion1,2-ETHANEDIOL
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:279 , ASP A:283 , HIS A:362 , HOH A:530 , HOH A:595 , HOH A:598BINDING SITE FOR RESIDUE ZN A 401
2AC2SOFTWAREHIS B:279 , ASP B:283 , HIS B:362 , HOH B:614 , HOH B:616BINDING SITE FOR RESIDUE ZN B 401
3AC3SOFTWARESER B:306 , TYR B:308 , GLY B:310 , GLN B:313 , TRP B:326 , MET B:328BINDING SITE FOR RESIDUE EDO B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4QPB)

(-) 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:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhh......ee...hhhh.ee..eeee.....eee....eeeeeeeee....eeeeeeee....eeeeeeee.ee......ee....eeee..........eeeeeeee.......ee.hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qpb A 252 EHSAQWLNNYKKGYGYGPYPLGINGGMHYGVDFFMNIGTPVKAISSGKIVEAGWSNYGGGNQIGLIENDGVHRQWYMHLSKYNVKVGDYVKAGQIIGWSGSTGYSTAPHLHFQRMVNSFSNSTAQDPMPFLKS 384
                                   261       271       281       291       301       311       321       331       341       351       361       371       381   


Chain B from PDB  Type:PROTEIN  Length:134
                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhee....ee....hhh.ee..eeee.....eee....eeeeeeeee....eeeeeeee....eeeeeeee.ee......ee....eeee..........eeeeeeee.......ee.hhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qpb B 251 HEHSAQWLNNYKKGYGYGPYPLGINGGMHYGVDFFMNIGTPVKAISSGKIVEAGWSNYGGGNQIGLIENDGVHRQWYMHLSKYNVKVGDYVKAGQIIGWSGSTGYSTAPHLHFQRMVNSFSNSTAQDPMPFLKS 384
                                   260       270       280       290       300       310       320       330       340       350       360       370       380
   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 4QPB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        LSTP_STASI | P10547: 4lxc 4qp5 5leo

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