LOCUS       NZ_CP056383             4386 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00628 plasmid pRHBSTW-00628_3, complete
            sequence.
ACCESSION   NZ_CP056383
VERSION     NZ_CP056383.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148667
            Assembly: GCF_013746415.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00628
  ORGANISM  Citrobacter sp. RHBSTW-00628
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 4386)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 4386)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP3 T2-00628
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 83.1954146362246x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:10:42
            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)                     :: 5,258
            CDSs (total)                      :: 5,140
            Genes (coding)                    :: 4,965
            CDSs (with protein)               :: 4,965
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 40 of 175
            Pseudo Genes (incomplete)         :: 135 of 175
            Pseudo Genes (internal stop)      :: 32 of 175
            Pseudo Genes (multiple problems)  :: 28 of 175
            Pseudo Genes (short protein)      :: 1 of 175
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056383.1.
            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..4386
                     /organism="Citrobacter sp. RHBSTW-00628"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00628"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:2742658"
                     /plasmid="pRHBSTW-00628_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(236..721)
                     /locus_tag="HV250_RS26070"
                     /old_locus_tag="HV250_26080"
     CDS             complement(236..721)
                     /locus_tag="HV250_RS26070"
                     /old_locus_tag="HV250_26080"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_139764470.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTEQSVKREFARLEKSISAELQSSS
                     QSISNAIREQNGRLTGMLRTSVSTAMAWIFICFALLIGILGGIIWFQGTIITSRLSEMD
                     SYSQLLASLKAKSGAGVTIYSDEKNRNTYLAVLPKQAHGVETYTSQAGNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            complement(<768..1190)
                     /locus_tag="HV250_RS26545"
                     /old_locus_tag="HV250_26085"
                     /pseudo=""
     CDS             complement(<768..1190)
                     /locus_tag="HV250_RS26545"
                     /old_locus_tag="HV250_26085"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1399..1725)
                     /gene="mobC"
                     /locus_tag="HV250_RS26080"
                     /old_locus_tag="HV250_26090"
     CDS             complement(1399..1725)
                     /gene="mobC"
                     /locus_tag="HV250_RS26080"
                     /old_locus_tag="HV250_26090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_001715145.1"
                     /translation="MEKRTREIKIRLTDSEHQRLIDRCDRTHLAEWLRQLGLGEHTARK
                     RRLPDVAPELLRQVSGIGNNLNQIARRLNQLDGLNPTERVSLLAVLNSLDRNLGELLEQ
                     HRDR"
                     /name="mobC"
     gene            complement(1970..2470)
                     /locus_tag="HV250_RS26085"
                     /old_locus_tag="HV250_26095"
     CDS             complement(1970..2470)
                     /locus_tag="HV250_RS26085"
                     /old_locus_tag="HV250_26095"
                     /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_001715146.1"
                     /translation="MFGFFRKKISSNQVDLYVSDKILGVAKKVVAIVEANGVTIVDGEG
                     VVFLAAGLFLNATYLKEHGRKSDAVRVKVIGFVKHYLDSTDDQSMLERLSDNTRWFSQG
                     NMSGYWFLNQVIGDLCGLKVNPIHQQILSNEVLDTLLKFFHERTVTISKTLSEDIYPFY
                     NPA"
                     /name="hypothetical protein"
     gene            complement(2470..3360)
                     /locus_tag="HV250_RS26090"
                     /old_locus_tag="HV250_26100"
     CDS             complement(2470..3360)
                     /locus_tag="HV250_RS26090"
                     /old_locus_tag="HV250_26100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_079967944.1"
                     /translation="MNNAALQLFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRIGAAIDWSDRNAPAPTLTITNPENGHAHLLYALKTSIRTAPDGKMK
                     PLKYAAAVENALRKKLDADTGYSGLICKNPNHGHWKIAVWQPELYTLDWLADSLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPQYEQWLQACYERARAYNLQFSAPLD
                     ENEVSGIAKSIAKWTYKNFSEANFLQYVADTHSSEIQSKRGMKSRGGGRPKIVGSPWLN
                     LGISRSKWYRDFRGL"
                     /name="replication initiation protein"
     gene            complement(3554..3838)
                     /gene="nadS"
                     /locus_tag="HV250_RS26095"
                     /old_locus_tag="HV250_26105"
     CDS             complement(3554..3838)
                     /gene="nadS"
                     /locus_tag="HV250_RS26095"
                     /old_locus_tag="HV250_26105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            complement(3840..4172)
                     /locus_tag="HV250_RS26100"
                     /old_locus_tag="HV250_26110"
     CDS             complement(3840..4172)
                     /locus_tag="HV250_RS26100"
                     /old_locus_tag="HV250_26110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_001715142.1"
                     /translation="MSHTIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKVRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          1400..1592
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.969"
                     /coverage="100.0"
                     /evalue="1.72e-93"
     Typing          complement(4..1409)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.537"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 ctacctgact gctcaagcgc tgacacaccc tgtcgctgtg cgtcagcgcc tgtgaggtag
       61 cctcgaacat gtgctgcaaa ctgctgtagc tgtcctgcca cgcctcctgc tgttgctcgt
      121 agcttgcctg taagctctct aaggcgctca gaagctgttt ttccatctcg gtcatggttt
      181 tgctcatcct cggtgttaaa accgctcaga cgcgattcag ggcgttctga tgaggttatt
      241 tcgccgtgta tttcaccacg gtattcccgg cctgcgaggt gtaggtttcc acgccgtgcg
      301 cctgcttcgg cagcaccgcc aggtaggtgt tccggttctt ttcgtcgctg taaatcgtca
      361 cgcccgcgcc gcttttcgct ttcaggctcg ccagcagctg actgtagctg tccatttcgc
      421 tcaggcgtga ggtgatgatc gtgccttgaa accaaattat cccgcccagg atgccaatca
      481 gcagggcgaa gcagatgaat atccacgcca tcgccgttga gactgacgtt ctgagcatgc
      541 ccgtcaacct gccgttctgc tcgcggatag cgttgctgat gctctgcgag cttgattgca
      601 gttccgcgct gatagacttc tccagcctcg cgaactcgcg cttcacgctc tgctcggtat
      661 cctgcgcctg ctgcttcgat ttctcctcga agcccttcgc caaatttaaa atctcgctca
      721 taaatcattc ctttcagccg gatatttctg ccgccgtccg gatcggcaat gctgatgctg
      781 cttttcgttt cccgcgccac ggtcaggccg tagctttcca gctgcgtcac cacgtcctgc
      841 cggctgcgga tcacgccctg ctgcatcagg ttcatcaggc cggcggtgat tttctctgcc
      901 gcctgctgtt tgtcgcgggg cagatcactg gcctgcgtaa gcgggcggcg gtaggtcggg
      961 tcattcgggt cgcgtagccc cagccggtcg ttggtcaggg tctgccaggc gttgacgcgg
     1021 ggacggtcgg cgcggtcgaa atagggttgc agacgtttcc cgctctgtaa ttcgatgttc
     1081 gggatcacga agttcagctc gaggcggcct ttgtcctgat gctcaaccca cagacaggcg
     1141 tactggtctt tgtcgagacc ggtcatcagt gtctgttccc attcgtccat aagacgcgcc
     1201 ttttcaggct cggcaatgtc ggcttcctga aaggacagca cgccggaggt gtaggcacgg
     1261 gcaaagtcac agccgtcaat cagttcgcgg gtgcgttcgg cgtctccccg caacacgcgg
     1321 gcgtcactgc gctggcgatc tttgcccagc aggtaatcaa cggggccact gcccgaaccg
     1381 gcaccccgtg agtgaatttt aacgatcacg gtgctgctcc agcagttcac cgagattgcg
     1441 gtcgaggctg tttaacaccg ccagcaggga cacacgctca gtgggattca gtccgtcgag
     1501 ctggttaaga cggcgggcga tctggttcag gttgttgcca atcccgctga cctgtcgcag
     1561 cagttcgggc gccacatcgg gcagacggcg ctttctggcg gtgtgttctc ccagaccgag
     1621 ctgacgcagc cattcggcca gatgggttcg gtcacaccgg tcgatcagac gctgatgctc
     1681 tgagtcagtc aggcggattt tgatctctct cgtgcgcttt tccattctta ctccgctgag
     1741 aaatattcgc acccaaagtg cgaaagtttc gcagtggatg cccggggttt cggggggcgg
     1801 cgagccccct gaaccagtca cagacggcac ctcgtagagg ggacgctgtg tgtactggct
     1861 taaagagtaa tgcagtatgt cagattctgt gctggctgca aaaaaaaagc cccgcttata
     1921 cggggctgtt atctgatata ggttgttttg tcccaaacta cgaaaacagt caggctggat
     1981 tataaaatgg atatatgtct tcactgaggg ttttactgat agtgaccgtg cgctcgtgga
     2041 aaaatttcag cagtgtatct agtacttcgt ttgatagaat ttgttgatgg atgggattaa
     2101 ccttcaatcc gcaaaggtcc ccaatgactt gattaagaaa ccaataaccc gacatgttcc
     2161 cttgagaaaa ccagcgggtg ttatcagata atctttccag catactttga tcatctgttg
     2221 aatctaggta gtgctttaca aaaccaataa ctttaactct tacagcgtct gattttctcc
     2281 catgttcctt aagataagta gcattgagaa aaagcccagc ggctaaaaat acaacacctt
     2341 cgccatcaac gatggttacg ccattagctt caactatggc tacaaccttc tttgcaacac
     2401 ctagaatctt atcgctaacg tataagtcga cttgattgct gctaattttt tttctaaaaa
     2461 aaccaaacat tataaccctc taaaatctct ataccattta gaacgactga ttcctaaatt
     2521 aagccaaggg cttccgacaa tctttggcct tccccctcct cgacttttca ttcctctttt
     2581 cgattgaatt tcagatgagt gagtatctgc aacatattgc aaaaaattag cttcagagaa
     2641 gtttttgtat gtccatttag caatgctctt agctattcca ctaacttcat tttcatccag
     2701 aggggcagaa aattgcaggt tgtaagctct ggcccgctca tagcaggctt gcagccattg
     2761 ctcatactgc ggccagccct gacggatagc gcggtaagcc cacttgcgtg ttttatcgaa
     2821 aagagtgcag ttacggccta agccgtaatc ggcaacgatt tctttatcgt tcgcggcgtt
     2881 caggtcgagc gagtcggcca gccagtccag cgtgtagagt tccggctgcc agacggcaat
     2941 tttccagtga ccatggttcg ggttcttgca aattaacccc gaatatcccg tgtcagcatc
     3001 cagtttttta cgtagcgcgt tctctacggc agcggcgtac ttcagcggct tcatttttcc
     3061 atctggtgca gtgcgtatcg aggttttcag cgcatagagc aggtgagcat gaccattttc
     3121 ggggttggtg atggtcagcg taggcgcggg cgcattgcga tcgctccagt cgatggcggc
     3181 accgatacgg tcaacgtcaa aaccgagcca gaacatggcg tgaggctggt tgaactggat
     3241 gtatttcgcc agaatcgcgc gctccttacc ggcaatgcgt acaccaaagt gcagatcgtc
     3301 cgaaaagtac ggcttgtgcg gtaagcgttc gttgaaaagt tggagtgcag cgttattcaa
     3361 agcgccctgc acttatggcg ggctgttgtc tggcacgttt catgtgctaa tatcctttca
     3421 aggtttcgta cctggccctg gttatcatgc ggatccgcca agatttgagc atgatgccgg
     3481 ggctttgttt tttctgttgc cgttaaatta cacgcgaacg gcctcgcctg tcgaatcctt
     3541 ctgtcacaac ggcttagtgc gccgccagct cctggaagaa tttcgggttc gcctggatgg
     3601 ttgccagcac cttcgccgcc agtccggtcg gattacggcg tccggtttcc cagcttttta
     3661 tggtgtcgag gctggttccc agcactttcg ccatctcact ctgtgaaacg ttcagttgtg
     3721 ccctgatagc cttcacgtct gccagctcgt aacgggtgac gcgggcaggc tctctgacgc
     3781 cgtttttgat ttcaacggct tcttccagcg atgctttcag ctcgtcaaaa aaactcatgt
     3841 cacacctcgt ctttcagttg ttgggtcagc gtcttcagcg cggctttctc cgcgtccgtc
     3901 aggctgtctt tggtgctttt cgggtaggcc atcaccagat aaatcacctc ggcggtggcc
     3961 agaaaataaa tcaccctcgc gctgccgctt tttccctggt tgcccgtcgc cattctgact
     4021 tttcgcagcc cgccggtttt ctggatgaga tcgcctttgt ccggcgactc aatcagcgtc
     4081 ttttgcagct ccctgagctc ttcatccgtg gcgatctgtt ttatctgacg ggtaaacatc
     4141 ggggtctcga taaattcaat cgtgtgactc acggttgtct cctgtatcta acggagtaca
     4201 tagtacactt aattctgatt ccggaaaaga ggtcacatcg aggggccata gtaccgggtc
     4261 ggctttttct gcggctccgg ctgttgctcg cgcagctttt ccgcacgggc gcggtcatgc
     4321 tgcgcaatca gcgcatcaag cggctgacgt tcctgctcaa gctctcgacc tgcgcgcgca
     4381 agctct
//
