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(-) Description

Title :  THE ESCHERICHIA COLI LYTIC TRANSGLYCOSYLASE SLT35 IN COMPLEX WITH BULGECIN A
 
Authors :  E. J. Van Asselt, K. H. Kalk, B. W. Dijkstra
Date :  12 Sep 99  (Deposition) - 06 Mar 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.97
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Helical Protein With A Five Stranded Anti-Parallel Beta-Sheet, Glycosyl Transferase, Ef-Hand (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. J. Van Asselt, K. H. Kalk, B. W. Dijkstra
Crystallographic Studies Of The Interactions Of Escherichia Coli Lytic Transglycosylase Slt35 With Peptidoglycan.
Biochemistry V. 39 1924 2000
PubMed-ID: 10684641  |  Reference-DOI: 10.1021/BI992161P
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 35KD SOLUBLE LYTIC TRANSGLYCOSYLASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: SLT35

 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
1BLG1Ligand/Ion4-O-(4-O-SULFONYL-N-ACETYLGLUCOSAMININYL)-5-METHYLHYDROXY-L-PROLINE-TAURINE
2CA1Ligand/IonCALCIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:237 , SER A:239 , ASP A:241 , HIS A:243 , ASP A:251 , HOH A:574BINDING SITE FOR RESIDUE CA A 400
2AC2SOFTWAREGLU A:162 , ARG A:188 , TYR A:191 , SER A:216 , ALA A:218 , ALA A:220 , GLN A:225 , PHE A:226 , MET A:227 , SER A:230 , TYR A:259 , TYR A:338 , ASN A:339 , HIS A:340 , HOH A:508 , HOH A:631 , HOH A:634 , HOH A:1106 , HOH A:1113 , HOH A:1132 , HOH A:1178BINDING SITE FOR RESIDUE BLG A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1D0L)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:109 -Pro A:110

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1D0L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1D0L)

(-) Exons   (0, 0)

(no "Exon" information available for 1D0L)

(-) 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:314
 aligned with MLTB_ECOLI | P41052 from UniProtKB/Swiss-Prot  Length:361

    Alignment length:322
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359  
           MLTB_ECOLI    40 LLEPQHNVMQMGGDFANNPNAQQFIDKMVNKHGFDRQQLQEILSQAKRLDSVLRLMDNQAPTTSVKPPSGPNGAWLRYRKKFITPDNVQNGVVFWNQYEDALNRAWQVYGVPPEIIVGIIGVETRWGRVMGKTRILDALATLSFNYPRRAEYFSGELETFLLMARDEQDDPLNLKGSFAGAMGYGQFMPSSYKQYAVDFSGDGHINLWDPVDAIGSVANYFKAHGWVKGDQVAVMANGQAPGLPNGFKTKYSISQLAAAGLTPQQPLGNHQQASLLRLDVGTGYQYWYGLPNFYTITRYNHSTHYAMAVWQLGQAVALARVQ 361
               SCOP domains d1d0la_ A: 36 kDa soluble lytic transglycosylase, SLT35                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------1        d0lA02 A:100-167,A:248-361  [code=1.10.530.10, no name defi--------------------------------------------------------------------------------1d0lA02 A:100-167,A:248-361  [code=1.10.530.10, no name defined]                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhh.hhhhhhhhhhh...hhhhhhhhhhh..--------...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.......eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......ee...........hhhhhhhhh............hhhhhhhhhhhhhhhh........eeeee.............eehhhhhhh..ee........eeeeeeee....eeeeeehhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1d0l A  40 MVEPQHNVMQMGGDFANNPNAQQFIDKMVNKHGFDRQQLQEILSQAKRLDSVLRLMDNQAP--------GPNGAWLRYRKKFITPDNVQNGVVFWNQYEDALNRAWQVYGVPPEIIVGIIGVETRWGRVMGKTRILDALATLSFNYPRRAEYFSGELETFLLMARDEQDDPLNLKGSFAGAMGYGQFMPSSYKQYAVDFSGDGHINLWDPVDAIGSVANYFKAHGWVKGDQVAVMANGQAPGLPNGFKTKYSISQLAAAGLTPQQPLGNHQQASLLRLDVGTGYQYWYGLPNFYTITRYNHSTHYAMAVWQLGQAVALARVQ 361
                                    49        59        69        79        89        99|      109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359  
                                                                                      100      109
   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)

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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1D0L)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MLTB_ECOLI | P41052)
molecular function
    GO:0016837    carbon-oxygen lyase activity, acting on polysaccharides    Catalysis of the cleavage of a carbon-oxygen bond by the elimination of an alcohol from a polysaccharide.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0008933    lytic transglycosylase activity    Catalysis of the specific cleavage of the beta-(1->4) glycosidic linkage between N-acetylmuramyl and N-acetylglucosaminyl residues in peptidoglycan, with the concomitant formation of 1,6-anhydro-N-acetylmuramyl residues.
biological process
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0009252    peptidoglycan biosynthetic process    The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
cellular component
    GO:0009279    cell outer membrane    A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        MLTB_ECOLI | P41052: 1d0k 1d0m 1ltm 1qdr 1qdt 1qus 1qut

(-) Related Entries Specified in the PDB File

1d0k SLT35 IN COMPLEX WITH TWO MURODIPEPTIDES (GLCNAC-MURNAC-L- ALA-D-GLU).
1d0l SLT35 IN COMPLEX WITH BULGECIN A
1d0m SLT35 IN COMPLEX WITH BULGECIN A AND (GLCNAC)2
1qdr SLT35 IN COMPLEX WITH NA+
1qdt SLT35 IN COMPLEX WITH CA2+.
1qus NATIVE SLT35 AT 1.70 ANG RESOLUTION
1qut SLT35 IN COMPLEX WITH GLCNAC