LOCUS       NZ_CP056900             4386 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Citrobacter sp. RHBSTW-00017 plasmid pRHBSTW-00017_2, complete
            sequence.
ACCESSION   NZ_CP056900
VERSION     NZ_CP056900.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148454
            Assembly: GCF_013797615.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00017
  ORGANISM  Citrobacter sp. RHBSTW-00017
            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                     :: WTP4 T1-00017
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 88.4630527150885x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013797615.1-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 02:24:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,916
            CDSs (total)                      :: 4,798
            Genes (coding)                    :: 4,637
            CDSs (with protein)               :: 4,637
            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)              :: 161
            CDSs (without protein)            :: 161
            Pseudo Genes (ambiguous residues) :: 0 of 161
            Pseudo Genes (frameshifted)       :: 41 of 161
            Pseudo Genes (incomplete)         :: 121 of 161
            Pseudo Genes (internal stop)      :: 31 of 161
            Pseudo Genes (multiple problems)  :: 27 of 161
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056900.1.
            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-00017"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00017"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:2742629"
                     /plasmid="pRHBSTW-00017_2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3629..4386,1..133)
                     /locus_tag="HV037_RS24330"
                     /old_locus_tag="HV037_24330"
     CDS             join(3629..4386,1..133)
                     /locus_tag="HV037_RS24330"
                     /old_locus_tag="HV037_24330"
                     /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            133..633
                     /locus_tag="HV037_RS24335"
                     /old_locus_tag="HV037_24335"
     CDS             133..633
                     /locus_tag="HV037_RS24335"
                     /old_locus_tag="HV037_24335"
                     /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            878..1204
                     /gene="mobC"
                     /locus_tag="HV037_RS24340"
                     /old_locus_tag="HV037_24340"
     CDS             878..1204
                     /gene="mobC"
                     /locus_tag="HV037_RS24340"
                     /old_locus_tag="HV037_24340"
                     /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(1212..1484)
                     /locus_tag="HV037_RS24750"
     CDS             complement(1212..1484)
                     /locus_tag="HV037_RS24750"
                     /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_220132918.1"
                     /translation="MLNPQTGVLVFVETGHQCLFPFVHKTRLFRLGNVGFLKGQHAGGV
                     GTGKVTAVNQFAGAFGVSPQHAGVTALAIFAQQVINGATARTGTP"
                     /name="hypothetical protein"
     gene            1413..>1835
                     /locus_tag="HV037_RS24755"
                     /pseudo=""
     CDS             1413..>1835
                     /locus_tag="HV037_RS24755"
                     /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            1882..2367
                     /locus_tag="HV037_RS24350"
                     /old_locus_tag="HV037_24350"
     CDS             1882..2367
                     /locus_tag="HV037_RS24350"
                     /old_locus_tag="HV037_24350"
                     /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            2437..2661
                     /locus_tag="HV037_RS24355"
                     /old_locus_tag="HV037_24355"
     CDS             2437..2661
                     /locus_tag="HV037_RS24355"
                     /old_locus_tag="HV037_24355"
                     /inference="COORDINATES: protein motif:HMM:NF016769.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_228286434.1"
                     /translation="MEKQLLSALESLQASYEQQQEAWQDSYSSLQHMFEATSQALTHSD
                     RVCQRLSSQVESLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2817..3149
                     /locus_tag="HV037_RS24360"
                     /old_locus_tag="HV037_24360"
     CDS             2817..3149
                     /locus_tag="HV037_RS24360"
                     /old_locus_tag="HV037_24360"
                     /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"
     gene            3151..3435
                     /gene="nadS"
                     /locus_tag="HV037_RS24365"
                     /old_locus_tag="HV037_24365"
     CDS             3151..3435
                     /gene="nadS"
                     /locus_tag="HV037_RS24365"
                     /old_locus_tag="HV037_24365"
                     /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"
     Typing          complement(1012..1204)
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.969"
                     /coverage="100.0"
                     /evalue="1.72e-93"
     Typing          1195..2747
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="87.838"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 tcactcatct gaaattcaat cgaaaagagg aatgaaaagt cgaggagggg gaaggccaaa
       61 gattgtcgga agcccttggc ttaatttagg aatcagtcgt tctaaatggt atagagattt
      121 tagagggtta taatgtttgg tttttttaga aaaaaaatta gcagcaatca agtcgactta
      181 tacgttagcg ataagattct aggtgttgca aagaaggttg tagccatagt tgaagctaat
      241 ggcgtaacca tcgttgatgg cgaaggtgtt gtatttttag ccgctgggct ttttctcaat
      301 gctacttatc ttaaggaaca tgggagaaaa tcagacgctg taagagttaa agttattggt
      361 tttgtaaagc actacctaga ttcaacagat gatcaaagta tgctggaaag attatctgat
      421 aacacccgct ggttttctca agggaacatg tcgggttatt ggtttcttaa tcaagtcatt
      481 ggggaccttt gcggattgaa ggttaatccc atccatcaac aaattctatc aaacgaagta
      541 ctagatacac tgctgaaatt tttccacgag cgcacggtca ctatcagtaa aaccctcagt
      601 gaagacatat atccatttta taatccagcc tgactgtttt cgtagtttgg gacaaaacaa
      661 cctatatcag ataacagccc cgtataagcg gggctttttt tttgcagcca gcacagaatc
      721 tgacatactg cattactctt taagccagta cacacagcgt cccctctacg aggtgccgtc
      781 tgtgactggt tcagggggct cgccgccccc cgaaaccccg ggcatccact gcgaaacttt
      841 cgcactttgg gtgcgaatat ttctcagcgg agtaagaatg gaaaagcgca cgagagagat
      901 caaaatccgc ctgactgact cagagcatca gcgtctgatc gaccggtgtg accgaaccca
      961 tctggccgaa tggctgcgtc agctcggtct gggagaacac accgccagaa agcgccgtct
     1021 gcccgatgtg gcgcccgaac tgctgcgaca ggtcagcggg attggcaaca acctgaacca
     1081 gatcgcccgc cgtcttaacc agctcgacgg actgaatccc actgagcgtg tgtccctgct
     1141 ggcggtgtta aacagcctcg accgcaatct cggtgaactg ctggagcagc accgtgatcg
     1201 ttaaaattca ctcacggggt gccggttcgg gcagtggccc cgttgattac ctgctgggca
     1261 aagatcgcca gcgcagtgac gcccgcgtgt tgcggggaga cgccgaacgc acccgcgaac
     1321 tgattgacgg ctgtgacttt gcccgtgcct acacctccgg cgtgctgtcc tttcaggaag
     1381 ccgacattgc cgagcctgaa aaggcgcgtc ttatggacga atgggaacag acactgatga
     1441 ccggtctcga caaagaccag tacgcctgtc tgtgggttga gcatcaggac aaaggccgcc
     1501 tcgagctgaa cttcgtgatc ccgaacatcg aattacagag cgggaaacgt ctgcaaccct
     1561 atttcgaccg cgccgaccgt ccccgcgtca acgcctggca gaccctgacc aacgaccggc
     1621 tggggctacg cgacccgaat gacccgacct accgccgccc gcttacgcag gccagtgatc
     1681 tgccccgcga caaacagcag gcggcagaga aaatcaccgc cggcctgatg aacctgatgc
     1741 agcagggcgt gatccgcagc cggcaggacg tggtgacgca gctggaaagc tacggcctga
     1801 ccgtggcgcg ggaaacgaaa agcagcatca gcattgccga tccggacggc ggcagaaata
     1861 tccggctgaa aggaatgatt tatgagcgag attttaaatt tggcgaaggg cttcgaggag
     1921 aaatcgaagc agcaggcgca ggataccgag cagagcgtga agcgcgagtt cgcgaggctg
     1981 gagaagtcta tcagcgcgga actgcaatca agctcgcaga gcatcagcaa cgctatccgc
     2041 gagcagaacg gcaggttgac gggcatgctc agaacgtcag tctcaacggc gatggcgtgg
     2101 atattcatct gcttcgccct gctgattggc atcctgggcg ggataatttg gtttcaaggc
     2161 acgatcatca cctcacgcct gagcgaaatg gacagctaca gtcagctgct ggcgagcctg
     2221 aaagcgaaaa gcggcgcggg cgtgacgatt tacagcgacg aaaagaaccg gaacacctac
     2281 ctggcggtgc tgccgaagca ggcgcacggc gtggaaacct acacctcgca ggccgggaat
     2341 accgtggtga aatacacggc gaaataacct catcagaacg ccctgaatcg cgtctgagcg
     2401 gttttaacac cgaggatgag caaaaccatg accgagatgg aaaaacagct tctgagcgcc
     2461 ttagagagct tacaggcaag ctacgagcaa cagcaggagg cgtggcagga cagctacagc
     2521 agtttgcagc acatgttcga ggctacctca caggcgctga cgcacagcga cagggtgtgt
     2581 cagcgcttga gcagtcaggt agagagcttg cgcgcgcagg tcgagagctt gagcaggaac
     2641 gtcagccgct tgatgcgctg attgcgcagc atgaccgcgc ccgtgcggaa aagctgcgcg
     2701 agcaacagcc ggagccgcag aaaaagccga cccggtacta tggcccctcg atgtgacctc
     2761 ttttccggaa tcagaattaa gtgtactatg tactccgtta gatacaggag acaaccgtga
     2821 gtcacacgat tgaatttatc gagaccccga tgtttacccg tcagataaaa cagatcgcca
     2881 cggatgaaga gctcagggag ctgcaaaaga cgctgattga gtcgccggac aaaggcgatc
     2941 tcatccagaa aaccggcggg ctgcgaaaag tcagaatggc gacgggcaac cagggaaaaa
     3001 gcggcagcgc gagggtgatt tattttctgg ccaccgccga ggtgatttat ctggtgatgg
     3061 cctacccgaa aagcaccaaa gacagcctga cggacgcgga gaaagccgcg ctgaagacgc
     3121 tgacccaaca actgaaagac gaggtgtgac atgagttttt ttgacgagct gaaagcatcg
     3181 ctggaagaag ccgttgaaat caaaaacggc gtcagagagc ctgcccgcgt cacccgttac
     3241 gagctggcag acgtgaaggc tatcagggca caactgaacg tttcacagag tgagatggcg
     3301 aaagtgctgg gaaccagcct cgacaccata aaaagctggg aaaccggacg ccgtaatccg
     3361 accggactgg cggcgaaggt gctggcaacc atccaggcga acccgaaatt cttccaggag
     3421 ctggcggcgc actaagccgt tgtgacagaa ggattcgaca ggcgaggccg ttcgcgtgta
     3481 atttaacggc aacagaaaaa acaaagcccc ggcatcatgc tcaaatcttg gcggatccgc
     3541 atgataacca gggccaggta cgaaaccttg aaaggatatt agcacatgaa acgtgccaga
     3601 caacagcccg ccataagtgc agggcgcttt gaataacgct gcactccaac ttttcaacga
     3661 acgcttaccg cacaagccgt acttttcgga cgatctgcac tttggtgtac gcattgccgg
     3721 taaggagcgc gcgattctgg cgaaatacat ccagttcaac cagcctcacg ccatgttctg
     3781 gctcggtttt gacgttgacc gtatcggtgc cgccatcgac tggagcgatc gcaatgcgcc
     3841 cgcgcctacg ctgaccatca ccaaccccga aaatggtcat gctcacctgc tctatgcgct
     3901 gaaaacctcg atacgcactg caccagatgg aaaaatgaag ccgctgaagt acgccgctgc
     3961 cgtagagaac gcgctacgta aaaaactgga tgctgacacg ggatattcgg ggttaatttg
     4021 caagaacccg aaccatggtc actggaaaat tgccgtctgg cagccggaac tctacacgct
     4081 ggactggctg gccgactcgc tcgacctgaa cgccgcgaac gataaagaaa tcgttgccga
     4141 ttacggctta ggccgtaact gcactctttt cgataaaaca cgcaagtggg cttaccgcgc
     4201 tatccgtcag ggctggccgc agtatgagca atggctgcaa gcctgctatg agcgggccag
     4261 agcttacaac ctgcaatttt ctgcccctct ggatgaaaat gaagttagtg gaatagctaa
     4321 gagcattgct aaatggacat acaaaaactt ctctgaagct aattttttgc aatatgttgc
     4381 agatac
//
