LOCUS       NZ_CP073052             4724 bp    DNA     linear   CON 26-JAN-2024
DEFINITION  Citrobacter sp. MGH105 plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP073052
VERSION     NZ_CP073052.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03280165
            Assembly: GCF_001037485.2
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. MGH105
  ORGANISM  Citrobacter sp. MGH105
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4724)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shenoy,E., Wurster,J., Shea,T.D., Chapman,S., Howe,W.,
            Walker,B. and Birren,B.W.
  TITLE     Multi-genus dynamics of carbapenem resistance within hospitals
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4724)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shenoy,E., Wurster,J., Shea,T.D., Chapman,S., Howe,W.,
            Walker,B. and Birren,B.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-MAY-2021) Infectious Disease and Microbiome Program,
            Broad Institute, 415 Main Street, Cambridge, MA 02142, USA
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 4724)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shenoy,E., Wurster,J., Shea,T.D., Chapman,S., Howe,W.,
            Walker,B. and Birren,B.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-AUG-2020) Infectious Disease and Microbiome Program,
            Broad Institute, 415 Main Street, Cambridge, MA 02142, USA
REFERENCE   4  (bases 1 to 4724)
  AUTHORS   Earl,A.M., Onderdonk,A.B., Kirby,J., Ferraro,M.J., Huang,S.,
            Spencer,M., Fodor,A., Hooper,D., Dekker,J., O'Brien,T., Quan,V.,
            Gombosev,A., Delaney,M., DuBois,A., Ernst,C., Kim,D.S., Rossman,W.,
            Gohs,F., Petruso,H., Nozar,T., Mougeot,F., Manson-McGuire,A.,
            Young,S., Abouelleil,A., Cao,P., Chapman,S.B., Griggs,A., Priest,M.,
            Shea,T., Wortman,I., Wortman,J.R., Nusbaum,C. and Birren,B.
  CONSRTM   The Broad Institute Genomics Platform, The Broad Institute Genome
            Sequencing Center for Infectious Disease
  TITLE     Direct Submission
  JOURNAL   Submitted (10-JUN-2015) Broad Institute of MIT and Harvard, 7
            Cambridge Center, Cambridge, MA 02142, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.3
            Assembly Name                     :: MGH105
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 159x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:23:07
            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)                     :: 5,378
            CDSs (total)                      :: 5,259
            Genes (coding)                    :: 5,190
            CDSs (with protein)               :: 5,190
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 69
            CDSs (without protein)            :: 69
            Pseudo Genes (ambiguous residues) :: 0 of 69
            Pseudo Genes (frameshifted)       :: 18 of 69
            Pseudo Genes (incomplete)         :: 45 of 69
            Pseudo Genes (internal stop)      :: 19 of 69
            Pseudo Genes (multiple problems)  :: 13 of 69
            Pseudo Genes (short protein)      :: 1 of 69
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073052.1.
            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..4724
                     /organism="Citrobacter sp. MGH105"
                     /mol_type="genomic DNA"
                     /strain="MGH105"
                     /host="Homo sapiens"
                     /db_xref="taxon:1686380"
                     /plasmid="unnamed4"
                     /collection_date="2014"
     gene            <1..778
                     /locus_tag="SK35_RS26755"
                     /pseudo=""
     CDS             <1..778
                     /locus_tag="SK35_RS26755"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: GeneMarkS-2+."
                     /pseudo=""
                     /codon_start=2
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /name="MobA/MobL family protein"
     gene            complement(803..949)
                     /locus_tag="SK35_RS26760"
     CDS             complement(803..949)
                     /locus_tag="SK35_RS26760"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_156174812.1"
                     /translation="MKKKQKPKKRNRNKKSKFFKMLMASVREAVEISKGNIEPARITIL
                     KKE"
                     /name="hypothetical protein"
     gene            complement(949..2394)
                     /locus_tag="SK35_RS26765"
     CDS             complement(949..2394)
                     /locus_tag="SK35_RS26765"
                     /inference="COORDINATES: protein motif:HMM:NF013603.4"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_053071046.1"
                     /translation="MFTGTSLINKSRSVNRPDNLKEFASVNGERITERKKETFNIALSM
                     KDKGEDLQDETLTKRAERSLKCSSFRYIATVNGQAQTLYTHRCKGRHCQECQRIKAYIW
                     QKKNEAIFPKLEENYPNAKYLFATFTIKNPKITDLRVVLSVMNKAANRLFKMKKYKNFI
                     LGGIRSTEITRGKSGADECHPHFHFLLMVKGNYGKKYYVNQEDWGKDWGDCLAYECDRA
                     GYPYNPIDYPRGFPIVDVVRAMDKEKKIEITNKNIKNSGEAIINYVLKYSVKGSDILDH
                     KKGKNDDWFFEFDKQIKGCRMITPVGIFKKYLSEIKKDPFDYEIEKAKIEERLGQNYQV
                     NKVIFKKGDYKLENKKDNEGYLLEALEAKAYNFQQLYLTIYSDYIKFYNDTKREISKLE
                     DKLFNEDNMLIESKIGRLLLIQEDRKKRINNTIESLKRVGYLKEEKGLYYDEWGSLWAT
                     FEIEKPTIEIVEINDFADMFEVW"
                     /name="protein rep"
     gene            complement(3134..3424)
                     /locus_tag="SK35_RS26770"
     CDS             complement(3134..3424)
                     /locus_tag="SK35_RS26770"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048216456.1"
                     /translation="MRRTPEQRKAYLEAQLNSVKAKINKQKRKDYTVKKRETDHLKYTF
                     AGDILKVMGCDVREVDLALVLGAVYFATSENANPKNVELYKKAGLDLLKKK"
                     /name="hypothetical protein"
     gene            complement(3421..3963)
                     /locus_tag="SK35_RS26775"
     CDS             complement(3421..3963)
                     /locus_tag="SK35_RS26775"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048216457.1"
                     /translation="MVRRKITVSDKTKELFKPFFDLSSYKEKKEGFEEEEYKRLVELCF
                     KSMGKGKLSINRPMATGKGILTFIYRTDKDLLLDEFIDRFEKKITKKRYMDFLLFILVD
                     DTKNIEKIEKMFTRICWVDIEDNVLKAIKCLKADGYDYKGFGDLIDYFEGLKRVRLEKE
                     ELNKIMASSKNKKRGRL"
                     /name="hypothetical protein"
     gene            4225..>4724
                     /locus_tag="SK35_RS26780"
     CDS             4225..>4724
                     /locus_tag="SK35_RS26780"
                     /inference="COORDINATES: protein motif:HMM:NF015354.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_215268668.1"
                     /translation="MAIYYFDVSSVSRNSGKKSASSVAASAYQNRARYTDERTGTTYDY
                     TKKGGLYYSGILAPENAPESLTASPLTLWNTIEAIEKRKDARLAKDFKISLLVELTPEQ
                     NKALILDFAQQAFVSKGMIVDLAIHDIDTQPHSHIKTTTRELTPEGFGGKVREWDKMDH
                     IME"
                     /name="MobA/MobL family protein"
ORIGIN
        1 gagggaatta tgggcaaaag tggctaacga acatttatta aaggctgggc atgatataac
       61 cattagccat ttaacattaa aagaacaaat gaaagaagca ctggaggaaa tggacaaaac
      121 aaccgacctg gaggaaaaaa taaaacttgc ttctaaggct atcgaattaa atagaccagc
      181 aatgaaaact atcagcaaga aggactgggg cgatcccaaa tttcaggaaa taagaaaaca
      241 ggaacaggag gcaaaaaaac aaatattaaa aaaggctaaa aattttagaa ttaaaaacac
      301 cagagaatta agagaaatac aaaaagaatt agataaaaaa tttagaccgt caaaaatata
      361 taaatcaatt tccgaggcaa ttagaaattt aaataataaa atcaccgact caaaattaaa
      421 taatatccta aatgacaaat tagataaact aacaaaagcc attatatcaa taccagaaaa
      481 tagaaaaata aagagggaga aaaaaataag agagaaagaa ttagaggaag aaaaaagaat
      541 atttagagaa actcacaaaa tggatgagtt tgggaatatt tataatatag aggacgataa
      601 aaaatggaat aaggaaaata ataaacttat taaacagcaa acagccagta ataaagcaaa
      661 agccgaagaa gaaagagaga agaaaaaatt agaggacgag gctaacagac tggctgaaaa
      721 aaataatatt tcacctaacg actttaagca aaagaaaaag aaagggttag gtatataggg
      781 ctatatacta caatatacta tactactctt tctttaaaat tgtgatcctt gctggctcaa
      841 tatttccttt tgaaatttca acggcttcac gaaccgaagc cattagcatt ttaaagaatt
      901 tactcttttt attacgattt ctttttttag gcttctgttt ctttttcatt accacacctc
      961 aaacatatca gcaaaatcat taatttccac tatctcaata gtaggttttt caatttcaaa
     1021 tgttgcccaa agcgatcccc attcgtcata atacagacct ttttcttctt taagataacc
     1081 aacccttttt aaactttcaa tagtattatt aattcgcttt ttcctgtctt cctgaattaa
     1141 taataatcta cctattttag actcgatcaa catattatct tcattaaata acttatcttc
     1201 taatttagat atttcccttt tagtgtcatt atagaactta atataatcac tatatatagt
     1261 taaatataat tgctggaaat tataggcttt tgcttccaat gcctctaata aataaccctc
     1321 attatctttt ttattttcga gtttataatc acccttttta aatatgactt tattaacctg
     1381 ataattttgt cccaatcttt cctctatttt tgctttttcg atttcataat caaatggatc
     1441 ttttttaatt tcacttaaat attttttaaa aattccgacg ggtgttatca ttcgacaacc
     1501 ttttatttgc ttatcaaatt caaaaaacca atcgtcattt tttccctttt tatggtctaa
     1561 aatatcacta cctttgacgg aatattttag aacataattt ataatcgctt cacccgaatt
     1621 tttaatattc ttgtttgtga tttcaatttt cttttcttta tccatagctc ttacaacgtc
     1681 cacgattggg aacccacgag gatagtcgat tggattatac ggataccctg ccctatcaca
     1741 ctcataagcc aggcaatccc cccaatcttt cccccaatct tcttgattta catagtattt
     1801 tttaccgtaa ttccctttta ccattaacaa aaaatgaaag tggggatggc attcgtctgc
     1861 cccagatttt ccccttgtga tctccgtcga acggataccg ccaagaataa aatttttata
     1921 ttttttcatt ttaaaaagtc tatttgctgc tttattcatt accgataaaa cgacccttaa
     1981 atctgttatt tttgggtttt taatcgtgaa tgtcgcaaat aaatattttg catttggata
     2041 gttttcttcc agttttggaa aaatagcctc attttttttc tgccagatat aagccttaat
     2101 tctttggcat tcctggcaat ggcgaccttt gcaacggtga gtatataagg tttgagcctg
     2161 tccgttaact gtggcgatat aacgaaaaga agaacacttt aaagaccttt cagccctttt
     2221 agttaatgtc tcgtcttgta gatcttcgcc tttgtctttc atagacaaag caatattaaa
     2281 ggtctctttt tttctttctg ttattcgttc accgtttaca ctggcaaact cttttagatt
     2341 atccggtcta ttgacagacc tacttttatt aattagactt gtccctgtaa acatattaag
     2401 aaataccccg tattgtatga atctagacaa ttccaacttt acggggtttt ttctttttgt
     2461 caaatcagtc aagcacttat cagatctacc tccaaaactt cccccaccgc caaaagtcga
     2521 taccgtccca ttttttccgt gtttttatgc cgttacggtt agacccgtcc catttttcac
     2581 accaaaaaac cggtgttcta aatgttccgt cccaaatctt ccgtttgtcg gatagtttta
     2641 aaaggtgtcg tcccattttt tggggtgttt tctggcgatc ttgaaggtgc tgtcccatat
     2701 ctggggaatt gattattttt tgttctaaaa ttctttagca aaaagtgcta tttacccccc
     2761 ttgaaaactg ctaaaaaaat ggggttaaag ccagtaatga cggggctttc aggggagttt
     2821 tagaggctaa gttttgcctc catttgtttc ttactaaaca aggggagggg tcgccttcgg
     2881 caacctcaaa ccaaacccct aaaaccaaag gcaaccccta ccggggcaat ggtataggta
     2941 tataacttag ttatgcaatc ctggacgaat gaacaacatt taaagacggc ttaacaggta
     3001 gaaggctcac tttgttcacc ttctaccttt gccaagtgtg tattgattgg agagccgtac
     3061 aagtacaaaa tcggaaccct taaaagggaa cccccgattt tctccttgac ggtttaacat
     3121 tggagggaaa attctatttt ttctttaaaa gatctaaacc tgctttttta tataactcta
     3181 catttttagg gtttgcattt tcacttgtag caaagtaaac agcaccaagc accaaagcaa
     3241 gatcaacttc ccgaacgtcg caccccataa cttttaaaat atcacctgca aaagtatatt
     3301 ttaaatgatc cgtttctctt ttcttaacag tgtaatcttt tcttttctgc ttgtttatct
     3361 ttgctttaac actattaagc tgggcttcta aatatgcttt tctttgttct ggtgttctcc
     3421 tcataatctc cccctctttt tatttttact tgaagccata attttattaa gttcctcttt
     3481 ttctaatcta acccttttta aaccctcaaa ataatcaatt aaatcaccaa accctttata
     3541 atcataaccg tcagccttta aacatttaat agcctttaaa acattatctt caatatctac
     3601 ccaacaaatt cgagtaaaca ttttttctat tttttctatg tttttagtat cgtcaaccaa
     3661 aataaaaagc aaaaaatcca tatatctttt tttagttatt ttcttctcaa atctatctat
     3721 aaactcgtct aacaataaat ctttatcagt cctatatata aaagttaaaa ttcctttacc
     3781 ggttgccatt ggtctattaa tgctgagttt tccttttccc atacttttaa aacacaactc
     3841 aacgagtctt ttatactctt cttcttcgaa gccttctttt ttctccttgt atgaactcaa
     3901 atcaaaaaaa ggtttaaata gttcctttgt tttatctgat actgttattt tcctccttac
     3961 cataaaaacc tccattatat ttagattaat taataaccat atacctccac aatttacttt
     4021 agtcaaattt atgttatatc taaaataagg aaaagcattt ttgccgttct gaaagttttt
     4081 tattttgagt ttacgaaaaa gaaaaattac ttgaagccct tctccgcatt gctaacgcaa
     4141 cgccagggtt tttccccgta aacgggaaaa aagaaaagca aaaaccaaac ccaaaaaaaa
     4201 atagaaaagt ggaggtttta caatatggct atatattatt ttgatgtttc cagtgtgagt
     4261 agaaactcag gcaaaaaatc ggcttcgtct gttgctgctt ctgcatacca gaacagagcc
     4321 agatatacag acgaacgaac cggcacaacc tacgattaca ccaaaaaagg gggtttatac
     4381 tactctggca ttttagcccc ggagaatgcc cctgagagtc tcacagcttc accgttgacc
     4441 ctatggaaca ccatagaggc cattgagaag aggaaggatg ccaggcttgc caaagacttc
     4501 aaaatctccc tattggtaga actaacccca gaacagaaca aagccttgat tttagacttt
     4561 gcacaacagg ctttcgtatc aaagggaatg attgtagatc tggctataca cgatatcgac
     4621 acccaaccac atagccatat aaaaacaact accagagaat taacaccgga gggatttggt
     4681 ggaaaagtta gagaatggga taaaatggat catattatgg agtg
//
