LOCUS       NZ_CP014217             5465 bp    DNA     circular CON 25-NOV-2023
DEFINITION  Acinetobacter baumannii strain YU-R612 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP014217
VERSION     NZ_CP014217.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN04448797
            Assembly: GCF_001543995.1
KEYWORDS    RefSeq.
SOURCE      Acinetobacter baumannii
  ORGANISM  Acinetobacter baumannii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Moraxellales;
            Moraxellaceae; Acinetobacter; Acinetobacter calcoaceticus/baumannii
            complex.
REFERENCE   1  (bases 1 to 5465)
  AUTHORS   Lee,Y., D'Souza,R., Yong,D. and Lee,K.
  TITLE     Prediction of Putative Resistance Islands in a Carbapenem-Resistant
            Acinetobacter baumannii Global Clone 2 Clinical Isolate
  JOURNAL   Ann Lab Med 36 (4), 320-324 (2016)
   PUBMED   27139604
REFERENCE   2  (bases 1 to 5465)
  AUTHORS   Lee,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JAN-2016) Department of Laboratory Medicine and
            Research Institute of Bacterial Resistance, Yonsei University
            College of Medicine, Sinchon, Seoul 120752, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: RS_HGAP_Assembly v. 3
            Genome Coverage                   :: 17X
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/25/2023 01:15:34
            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)                     :: 4,065
            CDSs (total)                      :: 3,968
            Genes (coding)                    :: 3,874
            CDSs (with protein)               :: 3,874
            Genes (RNA)                       :: 97
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 74
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 94
            CDSs (without protein)            :: 94
            Pseudo Genes (ambiguous residues) :: 0 of 94
            Pseudo Genes (frameshifted)       :: 32 of 94
            Pseudo Genes (incomplete)         :: 56 of 94
            Pseudo Genes (internal stop)      :: 12 of 94
            Pseudo Genes (multiple problems)  :: 6 of 94
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP014217.1.
            Source DNA available from Department of Laboratory Medicine and
            Research, Institute of Bacterial Resistance, Yonsei University
            College of Medicine, Seoul, Korea.
            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/
            This genome has a base modification file available.
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..5465
                     /organism="Acinetobacter baumannii"
                     /mol_type="genomic DNA"
                     /strain="YU-R612"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:470"
                     /plasmid="unnamed2"
                     /collection_date="2014-05"
                     /collected_by="Yangsoon Lee"
     gene            <5..208
                     /locus_tag="AXA63_RS20715"
                     /pseudo=""
     CDS             <5..208
                     /locus_tag="AXA63_RS20715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004781077.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="septicolysin"
                     /name="septicolysin"
     gene            complement(531..704)
                     /locus_tag="AXA63_RS21140"
     CDS             complement(531..704)
                     /locus_tag="AXA63_RS21140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001282484.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001282484.1"
                     /translation="MSDNIIQLSKPCTLCENRQNVQLFAGLMLCGSCQENIRLTNPSMF
                     SANDEIEQKAQN"
                     /name="hypothetical protein"
     gene            complement(704..1075)
                     /locus_tag="AXA63_RS20145"
                     /old_locus_tag="AXA63_20145"
     CDS             complement(704..1075)
                     /locus_tag="AXA63_RS20145"
                     /old_locus_tag="AXA63_20145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000504218.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000504218.1"
                     /translation="MGEKVKTYAVRLDPQVAEFYDQLANSEGIRTSKLFSKILTNDFQS
                     IAVKQQADRIEDLVNRLEKRIDDFEEDNNFSEKYYEDFSGLYFMMLWLLMKNGASKDEV
                     RMIQAKGYSYADDNYKRVK"
                     /name="hypothetical protein"
     gene            complement(1347..1601)
                     /locus_tag="AXA63_RS21405"
                     /old_locus_tag="AXA63_20150"
     CDS             complement(1347..1601)
                     /locus_tag="AXA63_RS21405"
                     /old_locus_tag="AXA63_20150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001014301.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001014303.1"
                     /translation="MNGQKIDFLRFSKQGNKYFFPCKTKHRPYVTLANFPIQDPAHAGI
                     FLSHTTHLTMTPLKALQDKDFSDFLGSQKRVQKNGLFLE"
                     /name="hypothetical protein"
     gene            2285..3226
                     /gene="repM"
                     /locus_tag="AXA63_RS20155"
                     /old_locus_tag="AXA63_20155"
     CDS             2285..3226
                     /gene="repM"
                     /locus_tag="AXA63_RS20155"
                     /old_locus_tag="AXA63_20155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005021644.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein RepM"
                     /protein_id="WP_060853654.1"
                     /translation="MRDLVVKDNALINASYNLDLVEQRLILLAIVEARESGKGINANDP
                     LEVHADSYINQFGVHRNTAYQALKDACKDLFARQFSYQEKKANGNIRNVMSRWVSQIAY
                     NDNEATVDLIFAPAVVPFITRLEEQFTKYELQQVSSLSSAYAIRLYELLIQWRSTGKTP
                     TIELQEFRKKLGVLDNEYLRMAHLKERVLELSIKQINEHTDITVKYEQHKRGRSISGFS
                     FTFKQKKKDSPSIERDPNTLELFSKMTDAQRHMFANKLSELPEMGRYSQGTESYQQFAV
                     RIAEMLQDPAQFKELYPYLKKWDTCHQIKRTP"
                     /name="repM"
     gene            3227..3802
                     /locus_tag="AXA63_RS20160"
                     /old_locus_tag="AXA63_20160"
     CDS             3227..3802
                     /locus_tag="AXA63_RS20160"
                     /old_locus_tag="AXA63_20160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005102333.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid replication DNA-binding protein"
                     /protein_id="WP_001096616.1"
                     /translation="MAKLSLSEVSKKFHVDRSTIYRAVRNGRLSRSSDGQFDLAEVIRC
                     FGEPEQTSQKIESSKQEGDESTKKLIAHLENEVKKYQEREERLMQQIDRMQTLIELKSV
                     APATAAPHQDATACDTKMPQHATTQQDTDNKKNNELNIAENVAVPQQETTAYHTQTLQH
                     ATLQSVAVPQHKKRGLFGRVLNAVFDND"
                     /name="plasmid replication DNA-binding protein"
     gene            3822..3965
                     /locus_tag="AXA63_RS21145"
     CDS             3822..3965
                     /locus_tag="AXA63_RS21145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004786602.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001125246.1"
                     /translation="MPKLKDIALGIIVAPLLIPIMLIASYQDKKALKKELDECQKEKDQ
                     AS"
                     /name="hypothetical protein"
     gene            complement(4154..4671)
                     /locus_tag="AXA63_RS20165"
                     /old_locus_tag="AXA63_20165"
                     /pseudo=""
     CDS             complement(4154..4671)
                     /locus_tag="AXA63_RS20165"
                     /old_locus_tag="AXA63_20165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000447193.1"
                     /GO_function="GO:0005515 - protein binding [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="tetratricopeptide repeat protein"
                     /name="tetratricopeptide repeat protein"
     gene            5044..5331
                     /locus_tag="AXA63_RS20170"
                     /old_locus_tag="AXA63_20170"
     CDS             5044..5331
                     /locus_tag="AXA63_RS20170"
                     /old_locus_tag="AXA63_20170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019383542.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="BrnT family toxin"
                     /protein_id="WP_000438826.1"
                     /translation="MEQYFEWDEAKNRKNQKKHDISFETASLVFEDPLRISIQDRHTNG
                     EERWQTIGRVKGVLMLLVAHTIFDEDDCEIIRIISARQVTKAERNKYEHG"
                     /name="BrnT family toxin"
     gene            5318..>5464
                     /locus_tag="AXA63_RS21005"
                     /old_locus_tag="AXA63_20175"
                     /pseudo=""
     CDS             5318..>5464
                     /locus_tag="AXA63_RS21005"
                     /old_locus_tag="AXA63_20175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006582675.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="toxin-antitoxin system, antitoxin component"
                     /name="toxin-antitoxin system, antitoxin component"
     Typing          2286..3234
                     /name="rep_cluster_1172"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.895"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttgttagaa cagcacaaaa ccctaactgc agcaataagt aatacatctc gtgaatctga
       61 tcgttatagt acgcgggaaa taaagtggca taaagttatt ccagtttcat cattacaaaa
      121 acaagctgat gatattagtc ttaaattacg tgatttaaac gtgttaattc agtcgactaa
      181 ttggaaaatt gatttgattg aagcctaata gtcctttaga tataatcaag ttgaacatac
      241 tgggcgagta caagatccct tacttccaca acataggatt gtaaataaag tgtagtggct
      301 tgcaaagcaa gtggataagc ttaaaatttt aagtacaaat caatccatca cttggcataa
      361 ctcaaatctt tgtgcaaaca aagttacacg ttacttataa ctaccatgta ctgacagtat
      421 gttcacctca attactaaaa ataaagaaat gaacaagcat cagctcaact acatttctat
      481 ttttaattca gttcggcatt taacataaaa tctcttatac gaagcccagg ttaattctgg
      541 gctttttgtt caatctcatc attggccgag aacatacttg gattcgtaag cctgatattt
      601 tcctgacaac ttccacacag catcaatcct gcaaaaagtt gtacattttg tctattttca
      661 caaagcgtac atggctttga aagctgaata atattatctg acactacttt accctcttat
      721 agttatcatc tgcatatgaa taacctttag cttgtatcat tctaacctca tctttagaag
      781 cgccattttt cattaagagc cacaacatca tgaaatatag tccagaaaag tcttcatagt
      841 atttttcaga aaaattgtta tcttcctcaa aatcatctat tcgcttttct aatcgattca
      901 ccagatcctc aatacgatcg gcttgctgtt taacagcaat agattgaaaa tcattggtca
      961 aaattttact gaataattta ctggttctga ttccttctga attagccaat tgatcgtaga
     1021 attctgctac ttgtggatct aacctgactg cataagtttt gactttttcg cccataaatt
     1081 acacctctta ttaaaattag attttgtaca aaattaaata tatataattc aactaattaa
     1141 ataaaaaata ataattagat tacgtacaaa cttatttgta cagaattaat ttattctaaa
     1201 acaaaaactt atttaaatat aatgcttttt ttatgtacaa tcatgagtac atattttttc
     1261 ttaaatttat caatatctta tctaaaaaaa gtgttgtttt gatgtacaac catgagcaca
     1321 gcataaaaaa tagataattc aatcacttat tctaaaaaaa gaccattttt ctgtacacgt
     1381 ttctgagacc ctaaaaaatc gctgaaatcc ttatcctgta aggctttgag gggtgtcatc
     1441 gttagatgcg tggtgtgtga caaaaaaatc ccggcatgtg ccggatcttg gattggaaaa
     1501 ttggctaaag tgacgtaggg ccggtgcttg gttttgcatg gaaaaaagta tttatttcct
     1561 tgtttagaaa aacgtaaaaa atcaattttt tgtccattca tccaggttaa aaatttcaac
     1621 ccaaaacttt aattatgaaa agcttcatag aacgcgttca aatgcgattt aagagccttt
     1681 acctagaaaa catagatctc atagtgaaaa acacaaaaca gctcaaaaaa cgcaaatgag
     1741 agcgaaataa agaggtattt tgactttaga tagatgcata gagcgagtgt ctacgagcga
     1801 actatcaaaa tttgcgccta gaccctctga aaaacatttt tttgtcctct ttagcctaag
     1861 aaagcgtaag tttcgtgcag aaatttgctc ctggatcgag cgtagcgagt aaaaaagttt
     1921 tatgagcgaa gcgaattcca agtttctttt gctttttttt aaagtcacgc cagtattaac
     1981 caaaaaattg ccccaacgaa ctgagcgaaa gcgaagttca atagagtttg agcgaagcga
     2041 aaaccaaggg caatttttca ttccctgggc ttttaattat tttaaagttt ttaaatactt
     2101 ttaaatggct tgaaagcctt atgaataaag ggttttagct cttatatgtc cacgtttacc
     2161 ttgcaatatg tccacgttta ccttgcaata tgtccacgtt taccttgcaa tatgtccacg
     2221 tttaccttgc attagtacac aaataatatt aacgtgtact tatacacaat aaaaaatagt
     2281 ggctatgaga gatttagttg taaaggacaa tgccttaatc aacgcaagct ataacttaga
     2341 cttagtagaa caacgtttaa ttttattggc tattgttgaa gcaagggaaa gtgggaaagg
     2401 gattaatgca aatgatccat tagaagttca tgcagatagt tatatcaatc aatttggtgt
     2461 acaccgtaat acagcttatc aagccttaaa agatgcttgt aaggatttat tcgcgcgtca
     2521 atttagctat caagagaaaa aagctaatgg gaatatccga aatgttatga gtcgttgggt
     2581 atctcaaatt gcttataacg acaatgaagc aactgtagac ttaatatttg cacctgctgt
     2641 tgttcccttc ataacccgac tggaagaaca atttactaaa tatgaattac agcaagttag
     2701 tagtcttagt agcgcttatg ccattcgctt atatgagctt ctaattcagt ggcgaagcac
     2761 tggtaaaacc ccaaccatag aactacaaga atttagaaag aagttaggcg ttcttgataa
     2821 tgaatattta cggatggctc atttaaaaga gcgtgtttta gagctttcaa ttaaacaaat
     2881 aaatgagcat acggatataa ctgtaaaata tgaacagcat aaaagaggac gttctatttc
     2941 aggattttct tttaccttta aacagaagaa gaaggatagc ccatcaatag aaagagatcc
     3001 gaacactttg gagctttttt caaagatgac cgatgctcaa cggcatatgt ttgcaaataa
     3061 actttcagaa ctccctgaaa tgggtcgcta ttcacaagga acagaaagct accaacagtt
     3121 tgctgtacgt attgctgaga tgctacaaga tcccgctcaa ttcaaagagc tatacccata
     3181 cctaaaaaag tgggatacat gccatcaaat aaaaaggaca ccgtaaatgg ctaagttatc
     3241 actaagtgaa gtatctaaaa aatttcatgt ggatagatca accatttaca gagctgtacg
     3301 taatggacgt ttatcacgct ccagtgatgg acaattcgat ctagcagagg tcatacgatg
     3361 ctttggagaa cctgagcaaa catctcaaaa aattgaatca tctaagcaag aaggtgatga
     3421 atctacaaaa aaacttattg cccatttaga aaatgaagtc aaaaaatacc aagaacgtga
     3481 agaacggtta atgcaacaaa ttgaccgtat gcaaacactc attgagctga aaagtgttgc
     3541 acctgccaca gcagcaccac accaagatgc tacggcatgc gacaccaaga tgccacagca
     3601 tgcgacaaca caacaagaca ctgataacaa aaagaataat gaattaaata ttgcagaaaa
     3661 tgtagcagtg ccacagcaag aaactacggc ataccacacc caaacgctac agcatgccac
     3721 gttgcaaagt gtggcagtgc cacaacacaa aaaacgtggt ttatttggcc gtgtgctgaa
     3781 tgccgtcttt gataatgact gagcaataag ggtgaaagat catgccgaaa ctgaaagaca
     3841 ttgccctggg aattattgta gctccgctgc tgatcccgat catgctgatt gcatcgtacc
     3901 aggataaaaa ggcgctgaag aaagagctgg atgaatgcca aaaagaaaaa gaccaggcat
     3961 cctgattatt caattgagct aatcaaaagt gtggaacatt gatgaaataa tagcgtggaa
     4021 cgtgaaaagt cataaaaaaa gcccgaacag ggatgctcgg gctataaact agaaactaca
     4081 gcgttgaatt ataaggataa ttatacagca tttcgtataa ggtgtattat gttaatttta
     4141 ggaaatatta aaactaattt tcagacttat cccaccaact ttgagctaaa tcagtatttt
     4201 taggaatacc tataccatca cgatacataa cggaaagact tcgcattgct ttcttattac
     4261 ctaactttgc agccttttca cgaagttcaa aagctttatt aatattaact tctattccgc
     4321 tatctgcacg agtatataga tcagctaact caaccattga ttcagaatgg ccattttctg
     4381 aggctttctg aaaccactta aaagcttttt ggaaatgttc taaagaatcg tttttgtcat
     4441 catcttccat taatctagca taagtaacat atccatcagc taaccaaaac attgctgcta
     4501 catttccatt ttctgctgat ttaagagccc aaacttcagc ttgattttca tctgaatcaa
     4561 caccatgacc atatagataa atctcggcta attctaactg agcagaagta tctccatttt
     4621 ctgctttcgc taataaatca ttagaaaaac aggttctgca aatgtttcca ttgaaaggca
     4681 aactcctaaa gccataaaaa tatttgttaa tttattcaat ttttaacctt taaactaaac
     4741 tgttaggctt gtatattttt atatcatacc taaaagaaaa ctctaaaatt agagtatgtc
     4801 ttatctctat ttaacataat ggcgattata cgaagtacac ttgtatatta atataaatat
     4861 caactactta ataaaaatag aaaaatccca aaatgcccaa aaagccgact ttgaaacaag
     4921 tcggcttttt tatgagcagt tttgatactt cttgccaata attttgacta aaaattacac
     4981 gaatctggtt gagtgataca attttgtgat acattattgt atatacaaat ttgaatgttt
     5041 tttatggaac agtattttga atgggatgag gctaagaatc gaaagaatca gaaaaagcat
     5101 gatatctctt tcgaaactgc aagccttgtt tttgaagatc cattacggat ctcaatccaa
     5161 gacagacata ccaatggtga agaacgttgg caaaccattg gacgagttaa aggcgtacta
     5221 atgttattgg tggctcacac catttttgat gaagatgact gtgaaatcat ccgaatcatt
     5281 agtgcaaggc aagtcactaa agcggagcga aacaaatatg agcatggtta gatactcaca
     5341 caaagagctg aatgagaaat ttggtgagaa gcaagatgct gaaattcaac gcttgcttgc
     5401 taaaggcacg gttcctgatg atcagctaga tctatcagat attcctgaaa ttacagactg
     5461 gagca
//
