Rahnella aceris strain S2-A69 plasmid p1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Rahnella.
Isotopic signatures of nitrous oxide derived from detoxification processes
Submitted (10-MAR-2022) Research Area Landscape Functioning, WG Microbial Biogeochemistry, Leibniz Centre for Agricultural Landscape Research (ZALF), Eberswalder Str. 84, Muencheberg D-15374, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP093329.1.\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 :: HGAP v. 4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 251x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 06:27:07\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) :: 5,016\nCDSs (total) :: 4,906\nGenes (coding) :: 4,847\nCDSs (with protein) :: 4,847\nGenes (RNA) :: 110\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 78\nncRNAs :: 10\nPseudo Genes (total) :: 59\nCDSs (without protein) :: 59\nPseudo Genes (ambiguous residues) :: 0 of 59\nPseudo Genes (frameshifted) :: 23 of 59\nPseudo Genes (incomplete) :: 47 of 59\nPseudo Genes (internal stop) :: 9 of 59\nPseudo Genes (multiple problems) :: 18 of 59\nPseudo Genes (short protein) :: 1 of 59\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015841860.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012882879.1
COORDINATES: similar to AA sequence:RefSeq:WP_010287026.1
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_016831067.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695905.1
COORDINATES: similar to AA sequence:RefSeq:WP_020393733.1
COORDINATES: similar to AA sequence:RefSeq:WP_019171057.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008124566.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578302.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014528454.1
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: protein motif:HMM:NF013799.2
COORDINATES: protein motif:HMM:NF012376.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013578417.1
COORDINATES: similar to AA sequence:RefSeq:WP_003605197.1
COORDINATES: similar to AA sequence:RefSeq:WP_018517392.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011654676.1
COORDINATES: protein motif:HMM:NF015862.2
COORDINATES: similar to AA sequence:RefSeq:WP_008004182.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013896892.1
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.
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012443019.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013578402.1
thioredoxin fold domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019105807.1
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: similar to AA sequence:RefSeq:WP_004102282.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013578392.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578393.1
COORDINATES: similar to AA sequence:RefSeq:WP_012884095.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578395.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578396.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013578397.1
COORDINATES: similar to AA sequence:RefSeq:WP_015572078.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578378.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_013578379.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578380.1
COORDINATES: similar to AA sequence:RefSeq:WP_004118099.1
COORDINATES: similar to AA sequence:RefSeq:WP_004118098.1
GO:0051920 - peroxiredoxin activity [Evidence IEA]
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_032495017.1
GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014683018.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007868896.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000670962.1
COORDINATES: similar to AA sequence:RefSeq:WP_001017348.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004168572.1
COORDINATES: similar to AA sequence:RefSeq:WP_004155535.1
COORDINATES: similar to AA sequence:RefSeq:WP_004168574.1
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004172012.1
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_010259082.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015697046.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013204490.1
COORDINATES: similar to AA sequence:RefSeq:WP_014229932.1
COORDINATES: similar to AA sequence:RefSeq:WP_004958554.1
COORDINATES: similar to AA sequence:RefSeq:WP_014229933.1
SMP-30/gluconolactonase/LRE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011846847.1
COORDINATES: similar to AA sequence:RefSeq:WP_019843181.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578366.1
COORDINATES: similar to AA sequence:RefSeq:WP_013810989.1
peptidase domain-containing ABC transporter
COORDINATES: similar to AA sequence:RefSeq:WP_014333856.1
sensor domain-containing diguanylate cyclase
COORDINATES: similar to AA sequence:RefSeq:WP_013578404.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578405.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_014333865.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014683045.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578408.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683043.1
COORDINATES: similar to AA sequence:RefSeq:WP_014914891.1
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010430819.1
COORDINATES: similar to AA sequence:RefSeq:WP_017458394.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006326384.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013578164.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_047234906.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012132695.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683019.1
COORDINATES: similar to AA sequence:RefSeq:WP_000017402.1
COORDINATES: similar to AA sequence:RefSeq:WP_001324367.1
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_025244073.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612096.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019105787.1
COORDINATES: similar to AA sequence:RefSeq:WP_000830285.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_031313474.1
frameshifted; 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.
COORDINATES: similar to AA sequence:RefSeq:WP_004096986.1
COORDINATES: similar to AA sequence:RefSeq:WP_004096987.1
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_000067287.1
COORDINATES: similar to AA sequence:RefSeq:WP_004096990.1
COORDINATES: similar to AA sequence:RefSeq:WP_004096992.1
COORDINATES: similar to AA sequence:RefSeq:WP_006326508.1
COORDINATES: similar to AA sequence:RefSeq:WP_004856299.1
COORDINATES: protein motif:HMM:NF014976.2
COORDINATES: similar to AA sequence:RefSeq:WP_002901236.1
COORDINATES: similar to AA sequence:RefSeq:WP_017348263.1
GO:0005215 - transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007370474.1
COORDINATES: similar to AA sequence:RefSeq:WP_006321932.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_015964379.1
COORDINATES: protein motif:HMM:NF012655.2
COORDINATES: similar to AA sequence:RefSeq:WP_008996730.1
COORDINATES: similar to AA sequence:RefSeq:WP_008996731.1
COORDINATES: protein motif:HMM:NF016513.2
GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008996733.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611505.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014333822.1
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:WP_000457592.1
COORDINATES: similar to AA sequence:RefSeq:WP_004661322.1
COORDINATES: similar to AA sequence:RefSeq:WP_014333819.1
COORDINATES: similar to AA sequence:RefSeq:WP_014333818.1
COORDINATES: protein motif:HMM:NF018148.2
COORDINATES: similar to AA sequence:RefSeq:WP_013578326.1
plasmid partitioning/stability family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013578325.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578324.1
COORDINATES: protein motif:HMM:NF013698.2
COORDINATES: similar to AA sequence:RefSeq:WP_007765351.1
COORDINATES: similar to AA sequence:RefSeq:WP_000219087.1
COORDINATES: similar to AA sequence:RefSeq:WP_008805001.1
COORDINATES: similar to AA sequence:RefSeq:WP_013512427.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578410.1
COORDINATES: similar to AA sequence:RefSeq:WP_013574307.1
COORDINATES: similar to AA sequence:RefSeq:WP_010670632.1