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(-) Description

Title :  CRYSTAL STRUCTURE OF E. COLI PBP5 WITH 2C
 
Authors :  J. Brem, R. Cain, M. A. Mcdonough, I. J. Clifton, C. W. G. Fishwick, C. J. S
Date :  08 Apr 16  (Deposition) - 17 Aug 16  (Release) - 28 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.53
Chains :  Asym./Biol. Unit :  A
Keywords :  Antibiotic Resistance, Penicillin Binding Protein, Boronic Acid, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Brem, R. Cain, S. Cahill, M. A. Mcdonough, I. J. Clifton, J. C. Jimenez-Castellanos, M. B. Avison, J. Spencer, C. W. Fishwick, C. J. Schofield
Structural Basis Of Metallo-Beta-Lactamase, Serine-Beta-Lactamase And Penicillin-Binding Protein Inhibition By Cyclic Boronates.
Nat Commun V. 7 12406 2016
PubMed-ID: 27499424  |  Reference-DOI: 10.1038/NCOMMS12406

(-) Compounds

Molecule 1 - D-ALANYL-D-ALANINE CARBOXYPEPTIDASE DACA
    Chains: A
    EC Number: 3.4.16.4, 3.5.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PDACA NHIS
    Expression System Taxid: 469008
    Gene: DACA, PFV, B0632, JW0627
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: DD-PEPTIDASE,BETA-LACTAMASE,PENICILLIN-BINDING PROTEIN 5, PBP-5

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1OK31Ligand/Ion(R)-3-(4-(AMINOMETHYL)BENZAMIDO)-8-CARBOXY-2,2-DIHYDROXY-3,4-DIHYDRO-2H-BENZO[E][1,2]OXABORININ-2-UIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:44 , SER A:110 , ASN A:112 , LEU A:153 , ARG A:198 , THR A:214 , GLY A:215 , HIS A:216 , ASP A:218 , ARG A:248 , TRP A:281binding site for residue OK3 A 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5J8X)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gly A:72 -Asn A:73
2Gly A:211 -Ile A:212
3Ala A:321 -Pro A:322

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5J8X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5J8X)

(-) Exons   (0, 0)

(no "Exon" information available for 5J8X)

(-) 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:340
                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee.....eeeee.......hhhhhhhhhhhhhhhhhhhh......eee..........eeehhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhh.eeee..eeee..hhhhhh....eeeeeeeee...eeeeeeeeee..eeeeeeeeee.hhhhhhhhhhhhhhhhhhheeee.........eeeeee.....eeeee......eeee.......eeeeee....ee.......eeeeeeeee..eeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5j8x A   4 NIKTMIPGVPQIDAESYILIDYNSGKVLAEQNADVRRDPASLTKMMTSYVIGQAMKAGKFKETDLVTIGNMFLKPGMQVPVSQLIRGINLQSGNDACVAMADFAAGSQDAFVGLMNSYVNALGLKNTHFQTVHGLDADGQYSSARDMALIGQALIRDVPNEYSIYKEKEFTFNGIRQLNRNGLLWDNSLNVDGIKTGHTDKAGYNLVASATEGQMRLISAVMGGRTFKGREAESKKLLTWGFRFFETVNPLKVGKEFASEPVWFGDSDRASLGVDKDVYLTIPRGRMKDLKASYVLNSSELHAPLQKNQVVGTINFQLDGKTIEQRPLVVLQEIPEGNFF 358
                                    13        23        33        43        53        63        73|       98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358
                                                                                                73|                                                                                                                                                                                                                                                                             
                                                                                                 89
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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 5J8X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5J8X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5J8X)

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:321 - Pro A:322   [ RasMol ]  
    Gly A:211 - Ile A:212   [ RasMol ]  
    Gly A:72 - Asn A:73   [ RasMol ]  
 

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  5j8x
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  DACA_ECOLI | P0AEB2
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 Related Entries

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

UniProtKB/Swiss-Prot
        DACA_ECOLI | P0AEB2: 1hd8 1nj4 1nzo 1nzu 1sdn 1z6f 3beb 3bec 3mzd 3mze 3mzf

(-) Related Entries Specified in the PDB File

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