LOCUS       NZ_CP085483             5500 bp    DNA     circular CON 23-NOV-2023
DEFINITION  Proteus sp. NMG38-2 plasmid p1_NMG38-2, complete sequence.
ACCESSION   NZ_CP085483
VERSION     NZ_CP085483.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22185037
            Assembly: GCF_020640995.1
KEYWORDS    RefSeq.
SOURCE      Proteus sp. NMG38-2
  ORGANISM  Proteus sp. NMG38-2
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 5500)
  AUTHORS   Zhang,L. and Li,Y.
  TITLE     Genome sequencing and assembly of Proteus sp. NMG38-2
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5500)
  AUTHORS   Zhang,L. and Li,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-OCT-2021) Department of pathogenic biology, Southwest
            Medical University, No.1 Section 1, Xiang Lin Road, Longmatan
            District, Luzhou, Sichuan 646000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: AUG-2021
            Assembly Method                   :: Unicycler v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 210.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/23/2023 04:34:13
            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)                     :: 4,437
            CDSs (total)                      :: 4,325
            Genes (coding)                    :: 4,275
            CDSs (with protein)               :: 4,275
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 50
            CDSs (without protein)            :: 50
            Pseudo Genes (ambiguous residues) :: 0 of 50
            Pseudo Genes (frameshifted)       :: 12 of 50
            Pseudo Genes (incomplete)         :: 36 of 50
            Pseudo Genes (internal stop)      :: 8 of 50
            Pseudo Genes (multiple problems)  :: 6 of 50
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085483.1.
            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..5500
                     /organism="Proteus sp. NMG38-2"
                     /mol_type="genomic DNA"
                     /strain="NMG38-2"
                     /isolation_source="feces of swine"
                     /host="swine"
                     /db_xref="taxon:2883107"
                     /plasmid="p1_NMG38-2"
                     /geo_loc_name="China: Inner Mongolia"
                     /lat_lon="39.37 N 109.16 E"
                     /collection_date="2018-12"
                     /collected_by="Luhua Zhang"
     gene            106..330
                     /locus_tag="LG402_RS22170"
                     /old_locus_tag="LG402_22165"
     CDS             106..330
                     /locus_tag="LG402_RS22170"
                     /old_locus_tag="LG402_22165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6290 family protein"
                     /protein_id="WP_196712564.1"
                     /translation="MLAIRLSDDIETRLESLAKQTGRTKTFYAREAILTHLEDLEDYYL
                     SAEIVAKIRRGEEQVHSAEDVRKALGLDD"
                     /name="DUF6290 family protein"
     gene            314..580
                     /locus_tag="LG402_RS22175"
                     /old_locus_tag="LG402_22170"
     CDS             314..580
                     /locus_tag="LG402_RS22175"
                     /old_locus_tag="LG402_22170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /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_125112842.1"
                     /translation="MVWTINYSERALKYLRKMDKQNARRIVDFMDLRIAALDDPRQSGK
                     PLKGELGEFWRYRVGDYRILCEIRDNELIILATTIGHRKSVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(674..1558)
                     /locus_tag="LG402_RS22180"
                     /old_locus_tag="LG402_22175"
     CDS             complement(674..1558)
                     /locus_tag="LG402_RS22180"
                     /old_locus_tag="LG402_22175"
                     /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_125112841.1"
                     /translation="MTEKHLVGFFKKNKDEKIYKITSSNEAFFENFVIVDEVQKFDPDD
                     RSDLGNVYYIDLLNDEITNVIFSDLKSLSSNDTINTSNYTSLKSNESKDVFKNMRYVAS
                     KDGKYLFFQSINKNKIIGGKILSLKNMQVLDGGYVSISDEPDVIFDLELKRFLFKSIAK
                     ARRIFSGFDAYYKEAGVKDVKAFIKRDEIIICPDFNEEKVNSLNKKRIQAEIDKQSSLK
                     KSLGDNYNNYIENDLKECISDLAMYYPDLVSEDKVVINNNSDLTNYLYALDERLYTTKR
                     SKAKRMVTAMRKL"
                     /name="hypothetical protein"
     gene            complement(1555..2106)
                     /locus_tag="LG402_RS22185"
                     /old_locus_tag="LG402_22180"
     CDS             complement(1555..2106)
                     /locus_tag="LG402_RS22185"
                     /old_locus_tag="LG402_22180"
                     /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_125112840.1"
                     /translation="MLNFLFKLLSTISAMTPAFFVFFITNYTKYCSDEINLFIKDNKLI
                     FFAGYIGVTLIIVLVLNCIFLKIASNLEGDGISGIISIEPVNDNFLPTYLGYFFVSVSI
                     TSLWVFSYFIILVISFNLFSKIYFFNPTLLLSGYKFYHLVSTQGVKVILITKKDLRAVG
                     DLSDGSYKRINDFTFIQVKK"
                     /name="hypothetical protein"
     gene            3870..4568
                     /locus_tag="LG402_RS22190"
                     /old_locus_tag="LG402_22185"
     CDS             3870..4568
                     /locus_tag="LG402_RS22190"
                     /old_locus_tag="LG402_22185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /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"
                     /protein_id="WP_069368824.1"
                     /translation="MSELIAYKSNALIEASYKLTLQEQRLLLMCIGKLNPRDKTPQKTF
                     KITSGDFYLAFPDMGKSNAERHLKEAIDKLAERWIYIQNNNERRRIRWIQEEAEYFEGE
                     GKIEIVFADSIMPYLTQLQGQFTKIVIKNVSTLKSVYSIRLYELLMQFKVIGDRLISID
                     DFRSMLGLDEKKYATFKSLNQWVIKPAIKELNQKSNLSVTVDTVKKGRSVFALHFHFKE
                     DQQIKMMLED"
                     /name="replication initiation protein"
     gene            4571..4999
                     /locus_tag="LG402_RS22195"
                     /old_locus_tag="LG402_22190"
     CDS             4571..4999
                     /locus_tag="LG402_RS22195"
                     /old_locus_tag="LG402_22190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006816427.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding protein"
                     /protein_id="WP_177504730.1"
                     /translation="MALVSISEAARLTGKARSTLHKYIKQGKLSTTTDQNTGNKSIETS
                     ELIRVFGKISNLSTTDSDSVTHVSKLQQETPSTTQSLQIKLQLLEQENAHLKAEKELLS
                     KNLDDIRQAMLLIESKLPATPEPVAPEPTKKSWQFWKK"
                     /name="DNA-binding protein"
     Typing          3871..4568
                     /name="rep_cluster_1791"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.999"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acaaccacat caacttctaa caaaaaaagg tgcttctggt ctttttcatg atttccgact
       61 ataatttgct atacatgtat agcaaaagca gatcaggagg tagccatgtt agctattcgt
      121 ttatctgatg acattgaaac acgtctggag tcactcgcca aacagacagg aagaaccaaa
      181 acattctatg cgagagaagc tatcctcact catttggaag atttggaaga ctactacctg
      241 tccgctgaaa tcgttgcaaa aattcgtcgc ggtgaagaac aagttcattc cgctgaagat
      301 gtgaggaaag cacttggtct ggacgattaa ttattctgaa cgggcgttaa aatatctacg
      361 aaaaatggat aaacaaaatg cccgtcgtat tgtcgatttc atggatttac gcattgcagc
      421 tttagatgac ccccgacagt caggaaaacc actcaaaggt gaactgggtg agttctggcg
      481 ttatagggtt ggtgactatc ggatactgtg cgaaataagg gataatgagc ttattattct
      541 tgctacaact ataggacata gaaaatcagt ctatgattag tataggctaa aaaatttaat
      601 taattaaaaa aattagaaat aaatatataa ctaaaaaata attttagtca tatatttact
      661 tcaatatttt aggctacaac tttcgcattg cagttaccat tcttttagct ttacttcttt
      721 ttgttgtata aagacgctca tctagcgcat acaaataatt agttaaatcg ctattattat
      781 taataacgac cttatcttca gaaacaagat ccggataata catagccaag tcagaaatac
      841 actcttttaa gtcattttct atataattat tataattatc acctaatgat ttttttaatg
      901 aactctgctt atctatctca gcttgaattc ttttcttatt gagagagtta accttctcct
      961 cattaaaatc aggacaaatt ataatttcat ctcttttgat aaatgctttt acgtctttga
     1021 ctccagcttc tttataataa gcatcaaacc ctgaaaaaat acgcctagct tttgctatac
     1081 ttttaaataa aaaacgcttt aattcaagat cgaaaatcac atcaggttca tcacttatag
     1141 aaacataacc gccatcaaga acctgcatat tttttaaaga taggatttta ccaccaataa
     1201 ttttattttt attaattgac tgaaaaaaca aatacttacc atctttcgat gctacatacc
     1261 tcatattttt aaaaacatct ttgctttcat ttgattttaa tgacgtataa tttgatgtat
     1321 taatagtgtc gtttgaactt aatgatttta agtcggaaaa tatcacattg gtaatttcat
     1381 cattcaataa atcaatgtag tatacattac ccaaatcact cctatcatca ggatcgaatt
     1441 tttgaacctc atccacaata acgaagtttt caaaaaatgc ttcgttagaa gaagttattt
     1501 tataaatttt ttcatcttta ttttttttaa aaaaacctac gaggtgtttt tcagtcattt
     1561 tttaacctgt ataaaagtaa agtcatttat tcttttgtaa ctaccgtctg ataaatcacc
     1621 tacggccctc aagtctttct tcgttattaa aattacttta accccctgag ttgatactag
     1681 atgataaaat ttatatccag ataaaagcaa agttggatta aaaaaataaa ttttagaaaa
     1741 taaattgaaa gatataacaa gaattatgaa ataggaaaaa acccatagcg atgtaatact
     1801 gacagaaaca aaaaaatagc ctaagtatgt tgggaggaaa ttatcgttca caggctctat
     1861 ggaaataata cctgaaatac catcgccttc aagattactt gctattttta aaaaaataca
     1921 atttaacact aaaactatta taagagtaac tcctatatat ccagcaaaga aaatcaattt
     1981 attatccttt ataaataaat taatttcatc actacaatat ttagtgtagt tagttataaa
     2041 aaaaacaaaa aatgctgggg tcatcgcaga tatggttgac aataatttaa ataaaaaatt
     2101 caacacattg cttaccttta catcatatag cactatgctt gtttaattta gtatattcat
     2161 actattttat atttttcaat gcgtaaactc acatcaaaaa tcttcatttc agctaggctg
     2221 gataaaacta atctgaagtg attataacac tgttacctta tgatcaacgt ctagtgtaga
     2281 aatttgtatg catatatgtg ataagcatca tgtaatgaaa cttacaatta cactgatgct
     2341 gtagcatctt aagcacagaa tatgggtaca aaaaacgaca tatacacaca aggcattgcg
     2401 gctaaaaaac aacctaatac ttattctcgt catttctaat gaaaaccaaa cttttctatc
     2461 aaaatatttt gttttgaaaa ttatcaaaga cattaagtcg ccaaaaccct aatggtgact
     2521 taatgcataa cgttattaag tcaccaagac cctagtgacg acttaatgta ttggctgtat
     2581 taagtcacta ctagggtagt tacggtataa ttagtttatg accagacagg gttttaggct
     2641 gggttaataa ccttgtcatt ttccggtttg caggggtact gtgagccgaa ggcgacgtag
     2701 gttgtactgg tgattatcca gatgaaatcc ctgatatatt catcttgatc tcctgagaga
     2761 agggagacaa aatcaaatgg cgaagtttgt agaccgcccc ggatggagat gaatatccct
     2821 gttcggggtt tttgccattt tgattaacgc aatctcagta ttacgggtca gacatcgctc
     2881 ttgaattcag aacgtttaaa ccgacaaata ttagcacctg ttcttatctg aaaatgaaaa
     2941 attggttttt aaactcagta atgaacctgt tgccttgcag acgtagacct ttcagcaata
     3001 tgtctcataa ccgtcaacat ttggtttatc aatttgataa ataacattat tcctactatt
     3061 taaattcttt tatcatcgac aataactata tttatcgagt atatgaaaat attataacct
     3121 tttgattttt aaccgctacc attcctggtt ctgtatctgt tcttttgaaa aaccggattt
     3181 tgaaaatcac atgaaccgtt ttctgaacgg cagcataaat tctgggaata tgcctgagaa
     3241 tgtaaaatac agtcttactg ctatatcgtt tatagcaata aaaaggcgca gaacgaatca
     3301 ggtgcggttt ttatgcctta agtgtggagt ttatcgtcac gggtgaagaa ggttgcttac
     3361 aggctcatac aataccatcc tggcagagcc gtgagcgtag cgaacttaat tgctctaaaa
     3421 aatcagcggt accgtggttt gatggtcgga gacaaaagat tctgtcagcg atatgctccc
     3481 gcaatgcggg gagctacctt ggtttgggaa tatgttttga aaaggagcaa actctgtttg
     3541 cgacatcctt ttagatacgg gaaaacgtga tgtatctgac aacttgggct ggtttatcca
     3601 cagggctttt ctgttttaaa ttgttttttg tttttaaacc ttgttttatc gttatgtatc
     3661 tttttgtatt ataacgataa aaatggtaat aggcatagaa atttacggta ataggcatag
     3721 aaatttacgg taataggcat agaaatttac ggtaataggc atagaaattt acggtaatac
     3781 tcacaaatta ggcatagata aaataaaaga cttgccttta atgtagggat agactaattt
     3841 tttgtctatc ccattaagta ggaagcgaca tgtctgaact aatagcatat aaatccaatg
     3901 cgttgattga agctagttac aaactaactt tacaggaaca gcgcttgcta ttgatgtgta
     3961 ttggaaagct aaaccctcgg gataaaactc ctcaaaaaac attcaaaatt acatctggcg
     4021 atttttatct agcatttcct gatatgggaa aaagtaatgc agaacgacat ttaaaagaag
     4081 ctatagataa gctcgctgaa cgttggatat atatacaaaa caataatgaa agacgacgta
     4141 ttcgctggat ccaagaagaa gcagaatatt ttgagggtga gggaaaaata gaaattgttt
     4201 ttgctgactc cataatgccc tacttaactc agcttcaagg tcaatttact aaaatcgtga
     4261 tcaaaaatgt atcaacacta aaaagtgtct atagcattcg tttatatgag ttattaatgc
     4321 aatttaaagt gattggagat cgattgatca gcattgatga ttttcgctcg atgctaggtt
     4381 tggacgaaaa aaaatacgcc accttcaagt cactgaatca atgggtaata aaaccagcaa
     4441 taaaagagtt aaaccaaaaa agcaatctat cagtaacagt tgatacagta aaaaaaggca
     4501 ggagtgtttt tgcgctacac tttcacttca aagaagatca acaaataaaa atgatgttag
     4561 aggattgatt atggctttgg tatcaatcag tgaagcggca aggctgacag gaaaagcaag
     4621 aagcacacta cacaagtaca taaaacaagg aaaactgtct acgactacag atcaaaatac
     4681 aggaaataaa agcattgaaa catctgagtt aattagagta tttggtaaaa taagcaatct
     4741 ctcaactaca gacagtgaca gcgtcacaca tgtatcaaaa ctacagcaag aaacacccag
     4801 tactacacaa tcactacaga ttaaacttca acttcttgaa caagaaaatg cacacttaaa
     4861 agctgaaaaa gagttacttt caaaaaattt agatgatata cgtcaagcta tgttattaat
     4921 cgaatccaag ctaccggcaa ctcccgaacc cgttgcacca gagccgacaa aaaaatcatg
     4981 gcaattctgg aaaaaatagc cggttggcgt catttttacc gcgaaaccga aaccgccgtt
     5041 ttgataacaa atgagtaaca aaaaaatggg ctttttacgt ggagaaaata gggaattttg
     5101 agtgattgag agggcttttt gattgagtgc ctaagcggtg ggtcgcttaa gatccattat
     5161 gttaaatggc atgcaatata cggaatttaa ctatctatcg aactctgtaa attacaggac
     5221 tgcatcttac attattagct cattcattta tggtcagggt atagatgaat catctatacc
     5281 ctgattgctt cacttacctg tggatttact cggctttaac tcaggagtat ttcccggagt
     5341 atctttattg tcgcgccgac gttgatctgg ttttcccgtc gattttgcga tgggtttcgg
     5401 accaggttta agacccataa taatctcctt tctttgtaag aggaaagccc tcaatgtgaa
     5461 catatgaggg cgcattaaaa ataatcaagt cgagcaatat
//
