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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF OXA-23 A220 DUPLICATION CLINICAL VARIANT
 
Authors :  K. J. Kaitany, N. V. Klinger, D. A. Leonard, R. A. Powers
Date :  04 Apr 13  (Deposition) - 07 Aug 13  (Release) - 23 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Carbapenemase, Cephalosporinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. C. Kaitany, N. V. Klinger, C. M. June, M. E. Ramey, R. A. Bonomo, R. A. Powers, D. A. Leonard
Structures Of The Class D Carbapenemases Oxa-23 And Oxa-146 Mechanistic Basis Of Activity Against Carbapenems, Extended-Spectrum Cephalosporins, And Aztreonam.
Antimicrob. Agents Chemother. V. 57 4848 2013
PubMed-ID: 23877677  |  Reference-DOI: 10.1128/AAC.00762-13

(-) Compounds

Molecule 1 - BETA-LACTAMASE
    Chains: A
    EC Number: 3.5.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24A
    Expression System Strain: BL-21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 31-273
    Gene: ARI-1, BLA(OXA-23), BLA-OXA-23, BLAOXA-146, BLAOXA-23, OXA-23, OXA23
    Mutation: YES
    Organism Scientific: ACINETOBACTER BAUMANNII
    Organism Taxid: 470
    Synonym: BETA-LACTAMASE OXA-23, BLAOXA-23, CARBAPENEM-HYDROLYZING BETA-LACTAMASE OXA-23, CARBAPENEMASE OXA-23, CLASS D BETA-LACTAMASE OXA-23, CLASS D BETA-LACTAMASE OXA-23, OXA-23, OXA-23 BETA-LACTAMASE, OXA-23 CARBAPENEMASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 14)

Asymmetric/Biological Unit (4, 14)
No.NameCountTypeFull Name
1BCT4Ligand/IonBICARBONATE ION
2CIT1Ligand/IonCITRIC ACID
3EDO4Ligand/Ion1,2-ETHANEDIOL
4NA5Ligand/IonSODIUM ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:79 , LYS A:82 , MET A:123 , LEU A:125 , SER A:126 , LYS A:216 , THR A:217 , GLY A:218 , TRP A:219 , ARG A:260 , HOH A:508 , HOH A:536 , HOH A:537 , HOH A:543 , HOH A:673BINDING SITE FOR RESIDUE CIT A 301
02AC2SOFTWARELYS A:194 , ASN A:198 , HOH A:412BINDING SITE FOR RESIDUE EDO A 302
03AC3SOFTWAREHIS A:186 , GLN A:188 , HOH A:564 , HOH A:583 , HOH A:684BINDING SITE FOR RESIDUE EDO A 303
04AC4SOFTWAREPRO A:256 , ALA A:257 , LYS A:269 , NA A:311 , HOH A:417 , HOH A:469 , HOH A:600 , HOH A:618BINDING SITE FOR RESIDUE EDO A 304
05AC5SOFTWAREHIS A:36 , GLN A:270 , LEU A:271 , ASN A:272 , HOH A:483 , HOH A:496BINDING SITE FOR RESIDUE EDO A 305
06AC6SOFTWARETHR A:49 , SER A:50 , ASN A:66BINDING SITE FOR RESIDUE BCT A 306
07AC7SOFTWAREVAL A:33 , GLN A:34 , LYS A:60 , ASN A:62 , BCT A:309BINDING SITE FOR RESIDUE BCT A 307
08AC8SOFTWARETHR A:73 , HOH A:416 , HOH A:545 , HOH A:608BINDING SITE FOR RESIDUE BCT A 308
09AC9SOFTWAREGLN A:31 , VAL A:33 , LYS A:60 , ILE A:61 , BCT A:307BINDING SITE FOR RESIDUE BCT A 309
10BC1SOFTWARESER A:253 , ASN A:261 , HOH A:418 , HOH A:476 , HOH A:589BINDING SITE FOR RESIDUE NA A 310
11BC2SOFTWARELYS A:269 , ASN A:272 , ILE A:274 , EDO A:304BINDING SITE FOR RESIDUE NA A 311
12BC3SOFTWARELYS A:82 , VAL A:128 , TYR A:131 , TRP A:165 , HOH A:470BINDING SITE FOR RESIDUE NA A 312
13BC4SOFTWAREGLU A:99 , ILE A:100 , HOH A:458BINDING SITE FOR RESIDUE NA A 313
14BC5SOFTWARETYR A:75 , VAL A:76 , HOH A:490 , HOH A:545 , HOH A:550BINDING SITE FOR RESIDUE NA A 314

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4K0W)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gln A:31 -Ile A:32
2Gly A:168 -Pro A:169
3Lys A:225 -Pro A:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4K0W)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4K0W)

(-) Exons   (0, 0)

(no "Exon" information available for 4K0W)

(-) 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:234
                                                                                                                                                                                                                                                                          
               SCOP domains d4k0wa_ A: automated matches                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee..hhhhhhhhhh....eeeeeee..eeeeee.hhhhhhh...hhhhhhhhhhhhhhhh...............hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhh....hhhhhhhhhhhhhh.....hhhhhhhhhhh.eeeee..eeeeeeeeee......eeeeeeeeee.....eeeeeeeeee......hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4k0w A  31 QIVQGHNQVIHQYFDEKNTSGVLVIQTDKKINLYGNALSRANTEYVPASTFKMLNALIGLENQKTDINEIFKWKKDMTLGEAMKLSAVPVYQELARRIGLDLMQKEVKRIGFGNAEIGQQVDNFWLVGPLKVTPIQEVEFVSQLAHTQLPFSEKVQANVKNMLLLEESNGYKIFGKTGWAAMDIKPQVGWLTGWVEQPDGKIVAFALNMEMRSEMPASIRNELLMKSLKQLNII 274
                                    40        50        60        70        80        90       100   ||  120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270    
                                                                                                   104|                                                                                                                                                               
                                                                                                    115
   Legend:   → Mismatch (orange background)
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  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: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4K0W)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4K0W)

(-) Gene Ontology  (3, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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4k0x