LOCUS       NZ_CP041588             6078 bp    DNA     circular CON 11-FEB-2024
DEFINITION  Acinetobacter baumannii strain J9 plasmid pJ9-1, complete sequence.
ACCESSION   NZ_CP041588
VERSION     NZ_CP041588.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12158047
            Assembly: GCF_007107525.1
KEYWORDS    RefSeq.
SOURCE      Acinetobacter baumannii
  ORGANISM  Acinetobacter baumannii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Moraxellales;
            Moraxellaceae; Acinetobacter; Acinetobacter calcoaceticus/baumannii
            complex.
REFERENCE   1  (bases 1 to 6078)
  AUTHORS   Hamidian,M., Ambrose,S.J., Nigro,S.J., Judd,L., Holt,K.E. and
            Hall,R.M.
  TITLE     Analysis of multiply antibiotic resistant Acinetobacter baumannii
            isolates recovered during an outbreak in a Sydney hospital
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6078)
  AUTHORS   Hamidian,M., Ambrose,S.J., Nigro,S.J., Judd,L., Iredell,J.,
            Holt,K.E. and Hall,R.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JUL-2019) Ithree Institute, University of Technology
            Sydney, Ithree Institute, Building 4, 15 Broadway, University of
            Technology Sydney, Ultimo, NSW 2007, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2018
            Assembly Method                   :: Unicycler v. Jan-2018
            Assembly Name                     :: J9-V1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 150.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/11/2024 09:16:25
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,755
            CDSs (total)                      :: 3,659
            Genes (coding)                    :: 3,602
            CDSs (with protein)               :: 3,602
            Genes (RNA)                       :: 96
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 74
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 57
            CDSs (without protein)            :: 57
            Pseudo Genes (ambiguous residues) :: 0 of 57
            Pseudo Genes (frameshifted)       :: 21 of 57
            Pseudo Genes (incomplete)         :: 31 of 57
            Pseudo Genes (internal stop)      :: 10 of 57
            Pseudo Genes (multiple problems)  :: 4 of 57
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041588.1.
            Bacteria and source DNA available from Ruth Hall.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..6078
                     /organism="Acinetobacter baumannii"
                     /mol_type="genomic DNA"
                     /strain="J9"
                     /host="Homo sapiens"
                     /db_xref="taxon:470"
                     /plasmid="pJ9-1"
                     /geo_loc_name="Australia: Westmead, Sydney"
                     /lat_lon="33.80 S 150.98 E"
                     /collection_date="1999"
                     /collected_by="Westmead Hospital"
     gene            join(5950..6078,1..558)
                     /locus_tag="FK728_RS18030"
     CDS             join(5950..6078,1..558)
                     /locus_tag="FK728_RS18030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004986708.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pentapeptide repeat-containing protein"
                     /protein_id="WP_002011386.1"
                     /translation="MSKLPRFHNKHIEKRKYSNSLLAKSISSKVRFSNKTFFNVNLRGS
                     RLRSCSFKNIKIVLSDFSGVILNKNRFTNVHFKKCVFYAAIFRDCRFKNCTFEKCIFIN
                     TNTESLNHSILDCSKKYNFYEMKIPDDLKDQLTEYRNIPILQKNRLLHLKGGRINTATL
                     FILLSKISKYKLLNGLKKIYIEEQSKVKILSTFKLLEEIKNLVDTNTAFKQNNGALPHP
                     IERLDS"
                     /name="pentapeptide repeat-containing protein"
     gene            649..1182
                     /gene="aadB"
                     /locus_tag="FK728_RS18035"
                     /old_locus_tag="FK728_p100003"
     CDS             649..1182
                     /gene="aadB"
                     /locus_tag="FK728_RS18035"
                     /old_locus_tag="FK728_p100003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000381802.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside nucleotidyltransferase
                     ANT(2'')-Ia"
                     /protein_id="WP_010883707.1"
                     /translation="MDTTQVALIHQILAAADERNLPLWIGGGWAIDARLGRVTRKHDDI
                     DLTFPGERRGELEAIVEMLGGRVTEELDYGFLAEIGDELLDCEPAWWADEAYEIAEAPQ
                     GSCPEAAEGVIAGRPVRCNSWEAIIWDYFYYADEVPPVDWPTKHIESYRFACTSLGAEK
                     VEVLRAAFRSRYAA"
                     /name="aadB"
     gene            complement(1341..2009)
                     /locus_tag="FK728_RS18040"
                     /old_locus_tag="FK728_p100004"
     CDS             complement(1341..2009)
                     /locus_tag="FK728_RS18040"
                     /old_locus_tag="FK728_p100004"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000423610.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Abi family protein"
                     /protein_id="WP_000423610.1"
                     /translation="MELSNDAVLKIEQALSIPRLSKYENFYKDKGEPYEKSDVLMLYER
                     NLIISNKFFYLLNYFEVVLRNAVVQAIEISFRCNETNSWHENEAFIRSLSRRGRYSPKS
                     MFDSAKEKFPDSPSKMIPELKFVFWQKMLMANYEERIWQGCFNSIFPNATVENRQIFYD
                     WTDQLRELRNRIAHHEPIIFNRNLENDLEVLTKFIYCRCINTYDFIEQSALDLKEYLDF
                     "
                     /name="Abi family protein"
     gene            complement(2142..2627)
                     /locus_tag="FK728_RS18045"
                     /old_locus_tag="FK728_p100005"
     CDS             complement(2142..2627)
                     /locus_tag="FK728_RS18045"
                     /old_locus_tag="FK728_p100005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005200081.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_051064109.1"
                     /translation="MNNNCVVVLTARGKTRILKEGGSQSWRLNAHNAGKCDYLVCVQNR
                     KQSWGEPEADHHTAFLVGKISSISQSQEEDADGRWIINISEYADISIPNMWDGNRNPVS
                     YSSLEEMNIDLNELKFTKLNEDNSSKTLDKISIPEAKRLLANYFDVPQENISITINM"
                     /name="hypothetical protein"
     gene            complement(2736..4550)
                     /locus_tag="FK728_RS18050"
                     /old_locus_tag="FK728_p100006"
     CDS             complement(2736..4550)
                     /locus_tag="FK728_RS18050"
                     /old_locus_tag="FK728_p100006"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000634474.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_000634474.1"
                     /translation="MIVDFFRHGSGLSKGCLDYLLGEDREREHAQVLNGDVELTAQLID
                     SSPFAKKYTSGCLSFYEHDLSDQDKQKIMQNFEECLFPGLDKDQYQILWVQHQDKINQD
                     TGETRLELNFVIPNVELSTGKRLQPFYAPVDLDRVDLFKQITNTEHSLYDPDDPEHRQL
                     FLNKKNLPKDIKDFKAQLHQRVYRAVANGDVADRQELVQWLESNQINVTRQVKNSISIE
                     NPYEGAKRPIRLEGEIYEQGFRATGEYRQEVQQRIEEYRGTTSERYRTNVTDYQRQLEH
                     KSQYHCDRYPTVGRENSPEHSKQRPDGREAVKPVSNLAAIEIEPFNAIKRANTEPRTTS
                     PESSGTEKTYHFEYGTDFSSSYFAYSNFLAWSRHQKQVQRDADAKYRDQREANEGRPFE
                     PIGRQFDDQHMQATRQQSTAPMYSDQQERRRMAERLHDSNGVLNDDRIRNTIIENHRRT
                     TATINATTSAIAEATASFRHNANQNYPSLVSTIKDNQERSAKLTASTEIISDNAEAISR
                     ARTKYSKLYRADQWQSPRDEPYHSQQRRNSGENLNHTAFCLVRSSQSAAEFARNIRDIE
                     KNLVQMNERKQEIEKPRPKQDRGMDFGM"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(4540..4947)
                     /locus_tag="FK728_RS18055"
                     /old_locus_tag="FK728_p100007"
     CDS             complement(4540..4947)
                     /locus_tag="FK728_RS18055"
                     /old_locus_tag="FK728_p100007"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000016535.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000016535.1"
                     /translation="MSGQEQENKQSKAVRERTFKVRLSESEYQLLDSNNPYGSIAKLLR
                     QAAVEKATKIHNSKAEDDQKIKATKVVESSYSKTERALILELGRIGNNVNQIAKAVNTD
                     IAGVGTFDKVKLLHLLISIDQQLRELRPDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     ARG             650..1179
                     /name="ant(2'')-Ia"
                     /gene="ant(2'')-Ia"
                     /gene_name="aminoglycoside nucleotidyltransferase
                     ANT(2'')-Ia"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="98.31"
                     /coverage="100.0"
     ARG             638..1182
                     /name="ANT(2'')-Ia"
                     /gene="ANT(2'')-Ia"
                     /gene_name="ANT(2'')"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="97.74"
                     /coverage="102.26"
     Typing          complement(2740..4550)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggatcccgcc tacgatcatg ttcattcaaa aatataaaaa ttgttttatc tgatttttca
       61 ggagtaatct taaataagaa taggtttacg aatgttcact tcaaaaagtg cgtattttat
      121 gctgctattt ttagagattg tcgctttaaa aattgcacat ttgaaaaatg catttttatt
      181 aatacaaata cagaaagcct aaatcactcg atattagact gttctaaaaa atataatttt
      241 tacgaaatga aaattcctga tgacttaaaa gatcaactaa cagaatatag aaatattcca
      301 atactgcaaa aaaaccgttt acttcatcta aaagggggaa gaatcaatac cgcaacctta
      361 ttcattctcc tatccaaaat atccaaatac aagctgctaa atggtcttaa aaaaatttat
      421 attgaggaac aaagtaaagt aaaaatactt agcactttca aactccttga agaaataaag
      481 aacctagttg acactaacac cgcattcaaa cagaataatg gtgctctgcc ccatccaatc
      541 gaaaggttgg atagttaaga caatcactgg gagctcacta ttggatgtaa caattcaatt
      601 aatagtctaa ttactgacat tctgggaggg cttactatgt taggccgcat ggacacaacg
      661 caggtcgcat tgatacacca aattctagct gcggcagatg agcgaaatct gccgctctgg
      721 atcggtgggg gctgggcgat cgatgcacgg ctagggcgtg taacacgcaa gcacgatgat
      781 attgatctga cttttcccgg cgagaggcgc ggcgagctcg aggcaatagt tgaaatgctc
      841 ggcgggcgcg tcacggagga gttggactat ggattcttag cggagatcgg ggatgagtta
      901 cttgactgcg aacctgcttg gtgggcagac gaagcgtatg aaatcgcgga ggctccgcag
      961 ggctcgtgcc cagaggcggc tgagggtgtc atcgccgggc ggccagtccg ttgtaacagc
     1021 tgggaggcga tcatctggga ttacttttac tatgccgatg aagtaccacc agtggactgg
     1081 cctacaaagc acatagagtc ctacaggttc gcatgcacct cactcggggc ggaaaaggtt
     1141 gaggtcttgc gtgccgcttt caggtcgcga tatgcggcct aacaattcgt ccaagccgac
     1201 gccgctttgc ggcgcggctt aactcaggtg ttaggaaaca ctgctaccgt tatcggattt
     1261 actgctttac tactaacctt gttaattcaa catttgcaaa atagtctgac ctttcgattg
     1321 tttggggtga aattcttatc ttaaaaatct aaatattctt ttagatctaa tgcagattgc
     1381 tcgataaaat cgtatgtatt aatacaacga cagtaaataa attttgttaa aacctctaaa
     1441 tcattttcta gattacggtt aaaaataatc ggttcatgat gagcaatcct gtttcttaat
     1501 tcacgtaatt gatctgtcca atcgtaaaaa atttgcctgt tttcaactgt tgcattagga
     1561 aaaatagaat taaaacatcc ctgccaaata cgttcttcat aattagccat aagcatcttt
     1621 tgccagaata caaatttaag ctcagggatc attttactag gcgaatctgg gaacttctct
     1681 ttagcactat caaacatact tttagggcta tacctccctc tacggctaag gcttcgaata
     1741 aaagcttcat tttcatgcca actatttgtt tcattacacc taaaagatat ttctattgcc
     1801 tgaacaacag catttctcag aacaacttca aaataattta ataagtaaaa aaacttattg
     1861 gaaattatta aattacgttc ataaagcatc aatacatcag atttttcata tggttcacct
     1921 ttatctttat agaaattttc atacttagat aagcgtggta tagataaagc ctgctctatc
     1981 ttaagcactg catcatttga caattccacc gtatataccc taatatatag ttgtaagttt
     2041 gagagactgc ggatctaaga tcttccctcc caagcgctaa gattcaaaaa agcctttcat
     2101 taacgtgaaa ggcttttttc tttttttggt caattaaaag cttacatatt gattgtaatt
     2161 gaaatatttt cttgagggac atcaaaataa ttagctaata gtctcttagc ttcaggaata
     2221 gatattttat ccagtgtttt agaagaatta tcttcattta atttggtaaa tttcagctca
     2281 ttcaaatcga tattcatctc ttctaatgaa ctataagaaa ctggattccg attaccatcc
     2341 cacatattgg gaatagatat atcagcatat tcggagatat ttattatcca tctaccatct
     2401 gcatcttctt cttgagattg gctgatacta gatattttgc caactaaaaa tgcagtgtga
     2461 tgatcagcct ctggttctcc ccaagattgt ttcctatttt gcacacaaac tagataatcg
     2521 cactttcctg cattatgagc atttagtctc caagactgac taccaccttc ttttaaaatt
     2581 ctagtctttc cacgagcagt tagtactact acacagttat tattcataac accaccaaaa
     2641 tatataaaca agcctatact acattcaata tagctaaatt taaacattag tataagctaa
     2701 tactaagaaa taaacaccaa catactagaa aataattaca tcccaaaatc catacctcga
     2761 tcttgcttag gtcgaggttt ttctatctct tgtttacgct cattcatctg gacgagattt
     2821 ttttcaatat ctcggatgtt tcgagcaaat tctgctgcgc tttggctact tctgacgaga
     2881 cagaatgctg tgtggttgag attctctcca gaatttcttc gttgttggct gtgataaggc
     2941 tcatctctcg gactttgcca ttgatctgct cggtatagct tgctgtactt cgttctagct
     3001 cgtgaaattg cttctgcatt gtcgctaatg atttctgtgc ttgctgtaag ctttgctgat
     3061 cgctcttgat tgtctttgat tgtgctgaca aggcttggat aattttggtt tgcattgtgt
     3121 ctaaagcttg ctgttgcttc tgcaattgca cttgttgttg cattaattgt tgctgttgtt
     3181 cttcgatgat tctcaataat tgtgtttcta attcggtcat cgtttaatac cccattggaa
     3241 tcatgtagcc gttctgccat tcgcctgcgt tcttgttgat ctgaatacat aggcgctgtg
     3301 ctttgctgtc tggtcgcttg catgtgctga tcgtcaaact gcctcccgat cggttcaaat
     3361 ggtcgaccct catttgcttc tcgttgatca cggtatttag cgtctgcatc tcgctgtact
     3421 tgtttttggt gacgagacca agcgagaaaa ttgctataag caaaataact gctactgaaa
     3481 tcagtcccat attcaaagtg gtaagttttt tctgtaccgc ttgattctgg gcttgttgtt
     3541 cttggctctg tatttgctcg tttaattgcg ttaaatggct caatttcgat tgcagcaagg
     3601 tttgatacag gcttaactgc ttctcgaccg tctgggcgtt gttttgaatg ctctgggcta
     3661 ttttctcgtc cgactgttgg atagcggtcg cagtgatatt ggctcttatg ttcaagctgt
     3721 ctctgatagt ctgtgacgtt tgttcgatac cgctcagaag ttgttcctct gtattcttca
     3781 attcgttgtt gtacttcttg tctatattcg ccagtagctc taaagccttg ctcataaatc
     3841 tcgccctcta aacggatggg acgttttgcg ccctcatatg ggttttcaat ggatatggag
     3901 ttttttactt gtcgagtgac attgatttga ttcgattcaa gccattgcac caattcttgc
     3961 cgatcggcaa catcaccatt ggcaaccgct cggtaaacac gttgatgtaa ctgcgcttta
     4021 aaatccttaa tatctttggg taggttcttt ttatttaaaa atagctgtcg atgctcagga
     4081 tcatcggggt catacagtga atgttcggta ttagtgatct gcttaaatag atcgactcga
     4141 tctaaatcga ctggcgcata gaatggctgt aggcgtttgc ctgttgaaag ctcaacatta
     4201 ggaatcacaa aattaagctc aagccttgtc tcacctgtgt cctgattaat tttgtcttgg
     4261 tgctgtaccc ataaaatttg atattggtct ttatctagtc ccgggaataa acattcctca
     4321 aaattttgca tgattttctg tttatcctgg tcagataaat catgctcata aaaggacaaa
     4381 caaccactgg tatatttttt ggcaaaagga ctgctatcaa tgagttgtgc tgtcagttct
     4441 acatcaccat tgagcacttg agcatgttca cgctctcgat cttcacctaa caaataatcg
     4501 agacagcctt ttgataaacc tgaaccatgt ctaaagaaat caacgatcat ctggacgtaa
     4561 ctcccgaagc tgctgatcta tggaaatcaa caaatgaagt aacttcactt tgtcaaaagt
     4621 acctacccct gcaatatcgg tattcactgc tttagcaatc tgattcacat tgttgccaat
     4681 ccgaccaagc tctaaaatta atgctcgctc tgtcttgcta tacgaagatt caacaacctt
     4741 tgttgcttta attttttggt catcttctgc tttggaatta tgaattttag tcgctttctc
     4801 tactgctgct tgtctaagca actttgcaat cgaaccataa ggattattgg aatcgagcaa
     4861 ttgatattct gattctgaaa gtctgacttt aaaggttcgt tctcgaactg ctttgctctg
     4921 tttgttttct tgttcctgtc ctgacatttc aatctaccct gctttggctt ttgtaagctt
     4981 taaattggaa aatctttgat ttttctgttt aaagcttttc gggggtatcg ggggtgaagc
     5041 ccctgatcaa ggtcacagac tatcactgtt taacgaagtt aaataggggt agctgtgtat
     5101 ccttgcttat ttaaaaatgg acgagtgaaa ttcaataaaa actaatcaaa tgacacggta
     5161 tataaactct agtaggtatt ggcatgaatc ttgtaaaaac aaatgcgctc aactctttct
     5221 caccgtcccc acatccctcg ctttgctcgg gctgatggtg aacgttgaga gagtttcggc
     5281 aatactttcc ctaagaggct ttgatttaaa aaaatcaaat atcctcttaa gtattgccga
     5341 ttaacctgta attgggctga cggagccacg catcggtcgt atccgcacat ggttttgctg
     5401 accatgcaga caaggactaa aggttttgca ccttctccca cgcgctccct gtcgaagtat
     5461 ggtggtatct ctgcgaggat tactccaaca tgcaacttaa ccaacctata caactacttc
     5521 caacgctccg cctatgtgag atcccctgta agcggtttag ccttgcgact atcgctacga
     5581 tgcaccagtg acacttattc cctccacatg caacgcatat cttccttaaa aaaggcgcac
     5641 agaagtagat aaagctcgac cgttaggtgc ttatttgatg atttaaactg ctgaattaac
     5701 gaaggacttc aaattgaggc ttgtcaaact gttctaattc tttaaaatag atagtggtac
     5761 tagcctttaa ggtgaatatc agtatgagtt gcaagctctg ccgatctttc gttaattgat
     5821 gttgcaagca tcaaataact gtacccatcg aatttaaaac taatggacag atttcgcaag
     5881 agacctgtcc attatttttt ttgattacac ctaagaatta agctgaaact cctattcttt
     5941 ggactattaa tgtcaaaact tcctagattt cataacaagc acatcgaaaa acgtaagtat
     6001 tcaaatagcc tcctagccaa atctatttct tctaaagtac gtttctctaa taaaacattt
     6061 tttaatgtta atttgaga
//
