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(-) Description

Title :  OXA-10 AVIBACTAM COMPLEX WITH BOUND BROMIDE
 
Authors :  J. Brem, M. Mcdonough, I. Clifton
Date :  13 Dec 16  (Deposition) - 12 Jul 17  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.56
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Antibiotic Resistance, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. T. Lohans, D. Y. Wang, C. Jorgensen, S. T. Cahill, I. J. Clifton, M. A. Mcdonough, H. P. Oswin, J. Spencer, C. Domene, T. D. W. Claridge, J. Brem, C. J. Schofield
(13)C-Carbamylation As A Mechanistic Probe For The Inhibition Of Class D Beta-Lactamases By Avibactam And Halide Ions.
Org. Biomol. Chem. 2017
PubMed-ID: 28678295  |  Reference-DOI: 10.1039/C7OB01514C

(-) Compounds

Molecule 1 - BETA-LACTAMASE OXA-10
    Chains: A, B
    EC Number: 3.5.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: BLA, OXA10, PSE2
    Organism Scientific: PSEUDOMONAS AERUGINOSA
    Organism Taxid: 287
    Synonym: BETA-LACTAMASE PSE-2

 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  (4, 16)

Asymmetric Unit (4, 16)
No.NameCountTypeFull Name
1BR6Ligand/IonBROMIDE ION
2GOL7Ligand/IonGLYCEROL
3NA1Ligand/IonSODIUM ION
4NXL2Ligand/Ion(2S,5R)-1-FORMYL-5-[(SULFOOXY)AMINO]PIPERIDINE-2-CARBOXAMIDE
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2GOL5Ligand/IonGLYCEROL
3NA-1Ligand/IonSODIUM ION
4NXL1Ligand/Ion(2S,5R)-1-FORMYL-5-[(SULFOOXY)AMINO]PIPERIDINE-2-CARBOXAMIDE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2GOL2Ligand/IonGLYCEROL
3NA-1Ligand/IonSODIUM ION
4NXL1Ligand/Ion(2S,5R)-1-FORMYL-5-[(SULFOOXY)AMINO]PIPERIDINE-2-CARBOXAMIDE

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:66 , SER A:67 , MET A:99 , SER A:115 , VAL A:117 , LYS A:205 , THR A:206 , GLY A:207 , PHE A:208 , ARG A:250 , HOH A:432 , HOH A:531 , HOH A:554 , HOH A:568 , HOH A:609binding site for residue NXL A 301
02AC2SOFTWAREALA A:197 , PRO A:198 , GLU A:199 , TYR A:200 , GLU A:227 , GLU A:229 , HOH A:487 , THR B:107 , ARG B:109binding site for residue GOL A 302
03AC3SOFTWARELYS A:138 , PHE A:139 , SER A:140 , GLU A:168 , SER A:172 , HOH A:528binding site for residue GOL A 303
04AC4SOFTWAREPRO A:96 , GLN A:144 , HOH A:416 , HOH A:426 , HOH A:471binding site for residue GOL A 304
05AC5SOFTWARELEU A:43 , LYS A:45 , SER A:50 , GLU A:261 , HOH A:406binding site for residue GOL A 305
06AC6SOFTWAREMET A:19 , GLY A:20 , CYS A:44 , LYS A:45 , SER A:46 , LYS A:49 , SER A:50 , CYS A:51 , GLU A:171 , HOH A:417 , HOH A:433binding site for residue GOL A 306
07AC7SOFTWARELYS A:70 , TRP A:154binding site for residue BR A 307
08AC8SOFTWAREALA A:98 , PRO A:118binding site for residue BR A 308
09AC9SOFTWAREARG A:250 , HOH A:715binding site for residue BR A 309
10AD1SOFTWARETYR A:63 , LEU A:64 , HOH A:581 , HOH A:651 , HOH A:673binding site for residue NA A 310
11AD2SOFTWARETHR A:107 , ARG A:109 , ALA B:197 , PRO B:198 , GLU B:199 , TYR B:200 , GLU B:227 , GLU B:229 , HOH B:413binding site for residue GOL B 302
12AD3SOFTWARELYS B:45 , SER B:46 , LYS B:49 , GLU B:171 , HOH B:403binding site for residue GOL B 303
13AD4SOFTWAREARG B:250binding site for residue BR B 304
14AD5SOFTWAREALA B:66 , SER B:67 , TRP B:154 , NXL B:301binding site for residue BR B 305
15AD6SOFTWAREALA B:98 , PRO B:118binding site for residue BR B 306
16AD7SOFTWAREPRO B:65 , ALA B:66 , THR B:68 , PHE B:69 , LYS B:70 , SER B:115 , VAL B:117 , LYS B:205 , THR B:206 , GLY B:207 , PHE B:208 , ARG B:250 , BR B:305binding site for Di-peptide NXL B 301 and SER B 67

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:44 -A:51
2B:44 -B:51

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5MNU)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5MNU)

(-) 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:246
                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee...hhhhhhh....eeeeeee....eeee.hhhhhh.ee.hhhhhhhhhhhhhhhh........ee........hhhhh..eehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.....................eehhhhhhhhhhhhh.....hhhhhhhhhhhheeeee..eeeeeeeee.........eeeeeeeeeee..eeeeeeeeeee.hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5mnu A  19 MGSITENTSWNKEFSAEAVNGVFVLCKSSSKSCATNDLARASKEYLPASTFKIPNAIIGLETGVIKNEHQVFKWDGKPRAMKQWERDLTLRGAIQVSAVPVFQQIAREVGEVRMQKYLKKFSYGNQNISGGIDKFWLEGQLRISAVNQVEFLESLYLNKLSASKENQLIVKEALVTEAAPEYLVHSKTGFSGVGTESNPGVAWWVGWVEKETEVYFFAFNMDIDNESKLPLRKSIPTKIMESEGII 264
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258      


Chain B from PDB  Type:PROTEIN  Length:247
                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhh....eeeeeee....eeee.hhhhhh.ee.hhhhhhhhhhhhhhhh........ee........hhhhh..eehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.....................eehhhhhhhhhhhhh.....hhhhhhhhhhhheeeee..eeeeeeeee...ee..eeeeeeeeeeeee..eeeeeeeeeee.hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mnu B  19 MGSITENTSWNKEFSAEAVNGVFVLCKSSSKSCATNDLARASKEYLPASTFKIPNAIIGLETGVIKNEHQVFKWDGKPRAMKQWERDLTLRGAIQVSAVPVFQQIAREVGEVRMQKYLKKFSYGNQNISGGIDKFWLEGQLRISAVNQVEFLESLYLNKLSASKENQLIVKEALVTEAAPEYLVHSKTGFSGVGTESNPGVAWWVGWVEKETEVYFFAFNMDIDNESKLPLRKSIPTKIMESEGIIG 265
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258
   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  (0, 0)

(no "SCOP Domain" information available for 5MNU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5MNU)

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 Related Entries

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UniProtKB/Swiss-Prot
        BLO10_PSEAI | P14489: 1e3u 1e4d 1ewz 1fof 1k4e 1k4f 1k54 1k55 1k56 1k57 1k6r 1k6s 2hp5 2hp6 2hp9 2hpb 2rl3 2wgi 2wgv 2wgw 2wkh 2wki 2x01 2x02 3lce 4s2o 4wz5 5fq9 5mmy 5mox 5moz

(-) Related Entries Specified in the PDB File

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