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(-) Description

Title :  CRYSTAL STRUCTURE OF DIM-1 METALLO-BETA-LACTAMASE EXPOSED TO CEFTAZIDIME
 
Authors :  M. P. S. Booth, M. Kosmopoulou, J. Spencer
Date :  20 Apr 15  (Deposition) - 27 May 15  (Release) - 27 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.79
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Zinc Metalloenzyme, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. P. S. Booth, M. Kosmopoulou, L. Poirel, P. Nordmann, J. Spencer
Crystal Stricture Of Dim-1 Metallo-Beta-Lactamase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - METALLO-BETA-LACTAMASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PXD-1
    Expression System Strain: TOP10
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BLADIM-1
    Organism Scientific: PSEUDOMONAS STUTZERI
    Organism Taxid: 316
    Synonym: DIM-1

 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, 14)

Asymmetric Unit (2, 14)
No.NameCountTypeFull Name
1CL10Ligand/IonCHLORIDE ION
2ZN4Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:81 , CYS A:158 , HIS A:200 , CL A:304 , CL A:306binding site for residue ZN A 301
02AC2SOFTWAREHIS A:77 , HIS A:79 , HIS A:139 , CL A:306 , HOH A:479binding site for residue ZN A 302
03AC3SOFTWAREHIS A:139 , CYS A:158 , HIS A:200 , ZN A:301 , CL A:306 , HOH A:406 , HOH A:442binding site for residue CL A 304
04AC4SOFTWAREARG A:161binding site for residue CL A 305
05AC5SOFTWAREHIS A:77 , ASP A:81 , HIS A:139 , ZN A:301 , ZN A:302 , CL A:304 , HOH A:479binding site for residue CL A 306
06AC6SOFTWAREVAL A:4binding site for residue CL A 308
07AC7SOFTWARETYR A:134binding site for residue CL A 309
08AC8SOFTWAREHIS B:77 , HIS B:79 , HIS B:139 , HOH B:463binding site for residue ZN B 301
09AC9SOFTWAREASP B:81 , CYS B:158 , HIS B:200 , CL B:303 , HOH B:463binding site for residue ZN B 302
10AD1SOFTWAREHIS B:139 , CYS B:158 , HIS B:200 , ZN B:302 , HOH B:405binding site for residue CL B 303
11AD2SOFTWAREARG B:161binding site for residue CL B 304
12AD3SOFTWAREVAL B:4binding site for residue CL B 305

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZEJ)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee..eeeeeeeeee...eeeeeeeeeeee..eeeee....hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhh...eeeehhhhhhhhhh......eee...eeee....eeee...........eeee....eeeeehhh..............hhhhhhhhhhhhhhhh....eeee.......hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zej A   2 DEVPELRIEKVKENIFLHTSYSRVNGFGLVSSNGLVVIDKGNAFIVDTPWSDRDTETLVHWIRKNGYELLGSVSTHWHEDRTAGIKWLNDQSISTYATTSTNHLLKENKKEPAKYTLKGNESTLVDGLIEVFYPGGGHTIDNVVVWLPKSKILFGGCFVRSLDSEGLGYTGEAHIDQWSRSAQNALSRYSEAQIVIPGHGKIGDIALLKHTKSLAETAS 220
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211         


Chain B from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee..eeeeeeeeee...eeeeeeeeeeee..eeeee....hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhh...eeeehhhhhhhhhh......eee...eeee....eeee...........eeee....eeeeehhh..............hhhhhhhhhhhhhhhh....eeee.......hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zej B   2 DEVPELRIEKVKENIFLHTSYSRVNGFGLVSSNGLVVIDKGNAFIVDTPWSDRDTETLVHWIRKNGYELLGSVSTHWHEDRTAGIKWLNDQSISTYATTSTNHLLKENKKEPAKYTLKGNESTLVDGLIEVFYPGGGHTIDNVVVWLPKSKILFGGCFVRSLDSEGLGYTGEAHIDQWSRSAQNALSRYSEAQIVIPGHGKIGDIALLKHTKSLAETAS 220
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211
   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 4ZEJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

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(-) Related Entries Specified in the PDB File

4wd6 4WD6 CONTAINS THE NATIVE PROTEIN