Proteus terrae subsp. cibarius strain ZN2 plasmid pZN2-tetX-171kb, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Morganellaceae; Proteus.
The genomic epidemiology of tigecycline resistance gene tet(X) variants in a swine farm in China
Submitted (05-JAN-2020) College of Veterinary Medicine, Yangzhou University, No. 567, Wenchang Middle Road, Hanjiang District, Yangz, Yangzhou, Jiangsu 225000, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP047350.1.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Unicycler v. v0.4.4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 50.0x\nSequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 14:39:53\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,799\nCDSs (total) :: 3,687\nGenes (coding) :: 3,654\nCDSs (with protein) :: 3,654\nGenes (RNA) :: 112\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 86\nncRNAs :: 4\nPseudo Genes (total) :: 33\nCDSs (without protein) :: 33\nPseudo Genes (ambiguous residues) :: 0 of 33\nPseudo Genes (frameshifted) :: 9 of 33\nPseudo Genes (incomplete) :: 22 of 33\nPseudo Genes (internal stop) :: 6 of 33\nPseudo Genes (multiple problems) :: 4 of 33\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
College of Veterinary Medicine, Yangzhou University
COORDINATES: similar to AA sequence:RefSeq:YP_005221099.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:YP_005221100.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
RepB family plasmid replication initiator protein
COORDINATES: similar to AA sequence:RefSeq:YP_005220950.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220951.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:YP_005220953.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220954.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220955.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220956.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220957.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220958.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220959.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220960.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220961.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220962.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220963.1
Fe3+-siderophore ABC transporter permease
COORDINATES: similar to AA sequence:RefSeq:YP_005220964.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220965.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220966.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220968.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220969.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220970.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220971.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220972.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:YP_005220973.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220975.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220976.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220977.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220978.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220979.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220980.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220982.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220983.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005220985.1
COORDINATES: similar to AA sequence:RefSeq:WP_000018404.1
COORDINATES: similar to AA sequence:RefSeq:WP_000757530.1
COORDINATES: similar to AA sequence:RefSeq:WP_005507671.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220989.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220990.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220991.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220992.1
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: similar to AA sequence:RefSeq:YP_005220994.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:YP_005220995.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220996.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220997.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220998.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549890.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221000.1
GO:0004803 - transposase activity [Evidence IEA]
IS6-like element IS26 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_032492145.1
aminoglycoside O-phosphotransferase APH(3')-Ia
COORDINATES: similar to AA sequence:RefSeq:WP_000019445.1
IS5-like element ISKpn26 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000557454.1
aminoglycoside N-acetyltransferase AAC(3)-IId
COORDINATES: similar to AA sequence:RefSeq:YP_005221025.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221027.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221028.1
COORDINATES: similar to AA sequence:RefSeq:WP_000971921.1
IS1182-like element ISCfr1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_032489893.1
broad-spectrum class A beta-lactamase TEM-1
COORDINATES: similar to AA sequence:RefSeq:WP_000050481.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
transposase zinc-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000480972.1
aminoglycoside O-phosphotransferase APH(6)-Id
COORDINATES: similar to AA sequence:RefSeq:WP_010890156.1
aminoglycoside O-phosphotransferase APH(3'')-Ib
COORDINATES: similar to AA sequence:RefSeq:WP_006991878.1
COORDINATES: similar to AA sequence:RefSeq:WP_001120888.1
IS91-like element ISVsa3 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_032491181.1
COORDINATES: similar to AA sequence:RefSeq:WP_016200501.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012616.2
rRNA adenine N(6)-methyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_002994913.1
COORDINATES: similar to AA sequence:RefSeq:WP_009090373.1
COORDINATES: similar to AA sequence:RefSeq:WP_015060600.1
tetracycline-inactivating monooxygenase Tet(X)
COORDINATES: similar to AA sequence:RefSeq:WP_015268017.1
COORDINATES: similar to AA sequence:RefSeq:WP_008938591.1
COORDINATES: protein motif:HMM:NF012235.2
ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF014126.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0071705 - nitrogen compound transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017827208.1
COORDINATES: protein motif:HMM:NF023271.2
COORDINATES: similar to AA sequence:RefSeq:WP_000214125.1
chloramphenicol/florfenicol efflux MFS transporter FloR
COORDINATES: similar to AA sequence:RefSeq:WP_001255015.1
COORDINATES: similar to AA sequence:RefSeq:WP_001043260.1
sulfonamide-resistant dihydropteroate synthase Sul2
COORDINATES: similar to AA sequence:RefSeq:YP_005221037.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221039.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221040.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005221041.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221042.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005221043.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221044.1
COORDINATES: similar to AA sequence:RefSeq:WP_000044824.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221046.1
COORDINATES: similar to AA sequence:RefSeq:WP_015058947.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221048.1
COORDINATES: similar to AA sequence:RefSeq:WP_000647188.1
COORDINATES: similar to AA sequence:RefSeq:WP_000936896.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000268550.1
COORDINATES: similar to AA sequence:RefSeq:WP_000362482.1
COORDINATES: similar to AA sequence:RefSeq:WP_000464631.1
COORDINATES: similar to AA sequence:RefSeq:WP_014386427.1
COORDINATES: similar to AA sequence:RefSeq:WP_000468105.1
COORDINATES: similar to AA sequence:RefSeq:WP_000366822.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010845927.1
COORDINATES: similar to AA sequence:RefSeq:WP_013184413.1
COORDINATES: similar to AA sequence:RefSeq:WP_001337757.1
COORDINATES: similar to AA sequence:RefSeq:WP_000178858.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0015074 - DNA integration [Evidence IEA]
Members of this protein family are the putative conjugative coupling factor, TraD, as the term is used for the SXT and TOL plasmid systems; Derived by automated computational analysis using gene prediction method: Protein Homology.
conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_000332868.1
COORDINATES: similar to AA sequence:RefSeq:WP_000743450.1
COORDINATES: similar to AA sequence:RefSeq:WP_000869261.1
COORDINATES: similar to AA sequence:RefSeq:WP_001231465.1
COORDINATES: similar to AA sequence:RefSeq:WP_001275801.1
COORDINATES: similar to AA sequence:RefSeq:WP_001052531.1
COORDINATES: similar to AA sequence:RefSeq:WP_000433889.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_001049717.1
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: similar to AA sequence:RefSeq:WP_000794249.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_000647304.1
COORDINATES: similar to AA sequence:RefSeq:WP_010845916.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_013141547.1
TraA family conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_000606833.1
COORDINATES: similar to AA sequence:RefSeq:WP_001259344.1
COORDINATES: similar to AA sequence:RefSeq:WP_000637386.1
COORDINATES: similar to AA sequence:RefSeq:WP_013184404.1
COORDINATES: similar to AA sequence:RefSeq:WP_001010738.1
COORDINATES: similar to AA sequence:RefSeq:WP_001447719.1
TrbC family F-type conjugative pilus assembly protein
COORDINATES: similar to AA sequence:RefSeq:WP_001337754.1
COORDINATES: similar to AA sequence:RefSeq:WP_005507569.1
COORDINATES: similar to AA sequence:RefSeq:WP_001256487.1
conjugal transfer mating pair stabilization protein TraN
COORDINATES: similar to AA sequence:RefSeq:WP_000709517.1
COORDINATES: similar to AA sequence:RefSeq:WP_000796664.1
COORDINATES: similar to AA sequence:RefSeq:WP_000547565.1
COORDINATES: similar to AA sequence:RefSeq:WP_001186917.1
COORDINATES: similar to AA sequence:RefSeq:WP_000085161.1
CbbQ/NirQ/NorQ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000739140.1
COORDINATES: similar to AA sequence:RefSeq:WP_000987165.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001282585.1
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000706865.1
COORDINATES: similar to AA sequence:RefSeq:WP_000170086.1
COORDINATES: similar to AA sequence:RefSeq:WP_000039317.1
COORDINATES: similar to AA sequence:RefSeq:WP_001447572.1
COORDINATES: similar to AA sequence:RefSeq:WP_000018871.1
COORDINATES: similar to AA sequence:RefSeq:WP_000793770.1
COORDINATES: similar to AA sequence:RefSeq:WP_000477209.1
COORDINATES: similar to AA sequence:RefSeq:WP_001102699.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]
class I ribonucleotide reductase maintenance protein YfaE
COORDINATES: similar to AA sequence:RefSeq:WP_013141572.1
COORDINATES: similar to AA sequence:RefSeq:WP_001176699.1
COORDINATES: similar to AA sequence:RefSeq:WP_000164429.1
COORDINATES: similar to AA sequence:RefSeq:WP_000651508.1
COORDINATES: similar to AA sequence:RefSeq:WP_000994741.1
COORDINATES: similar to AA sequence:RefSeq:WP_000209075.1
COORDINATES: similar to AA sequence:RefSeq:WP_000410925.1
COORDINATES: similar to AA sequence:RefSeq:WP_000201432.1
COORDINATES: similar to AA sequence:RefSeq:WP_011899375.1
COORDINATES: similar to AA sequence:RefSeq:WP_001093867.1
COORDINATES: similar to AA sequence:RefSeq:WP_000042274.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612015.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001187970.1
phosphoadenosine phosphosulfate reductase
COORDINATES: similar to AA sequence:RefSeq:WP_000050847.1
COORDINATES: similar to AA sequence:RefSeq:WP_000071869.1
GO:0002953 - 5'-deoxynucleotidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000184110.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221052.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221053.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221054.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221056.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221057.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221058.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221059.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221060.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221061.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221062.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221064.1
RHS repeat-associated core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221065.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221066.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221067.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221068.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221069.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221070.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221071.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005221072.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221073.1
COORDINATES: similar to AA sequence:RefSeq:WP_001097010.1
DNA replication terminus site-binding protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221085.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221086.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221087.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221088.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221089.1
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221090.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221091.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221092.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221093.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221094.1
GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]; GO:1902208 - regulation of bacterial-type flagellum assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005221095.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
H-NS family nucleoid-associated regulatory protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221096.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221097.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221098.1