Rahnella inusitata isolate Se8.10.12 plasmid unnamed2, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Rahnella.
Antarctic Rahnella inusitata: A Producer of Cold-Stable beta-Galactosidase Enzymes
Submitted (17-NOV-2020) Centro de Excelencia en Investigacion Biotecnologica Aplicada al Medio Ambiente (CIBAMA), Universidad de La Frontera, Av. Francisco Salazar 01145, Temuco, La Araucania 4811230, Chile
REFSEQ INFORMATION: The reference sequence is identical to\nCP065026.1.\nBacteria and source DNA available from Laboratorio de Biologia\nMolecular Aplicada, Universidad de La Frontera, Chile.\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 Date :: NOV-2020\nAssembly Method :: Unicycler v. 0.4.7\nAssembly Name :: UFRO-SE81012\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 134.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/24/2023 12:54:45\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) :: 5,090\nCDSs (total) :: 4,985\nGenes (coding) :: 4,929\nCDSs (with protein) :: 4,929\nGenes (RNA) :: 105\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 78\nncRNAs :: 5\nPseudo Genes (total) :: 56\nCDSs (without protein) :: 56\nPseudo Genes (ambiguous residues) :: 0 of 56\nPseudo Genes (frameshifted) :: 21 of 56\nPseudo Genes (incomplete) :: 38 of 56\nPseudo Genes (internal stop) :: 9 of 56\nPseudo Genes (multiple problems) :: 10 of 56\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011846847.1
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012772.2
bifunctional diguanylate cyclase/phosphodiesterase
COORDINATES: protein motif:HMM:NF012655.2
COORDINATES: similar to AA sequence:RefSeq:WP_004152065.1
sensor domain-containing diguanylate cyclase
COORDINATES: protein motif:HMM:NF012790.2
rhodanese-like domain-containing protein
COORDINATES: nucleotide motif:Rfam:14.4:RF01734
Fluoride riboswitches increase expression of downstream genes that help mitigate the toxic effects of very high levels of fluoride; They are found in a wide variety of bacteria and archaea; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_000640873.1
COORDINATES: similar to AA sequence:RefSeq:WP_000063194.1
COORDINATES: protein motif:HMM:NF012341.2
GO:0004634 - phosphopyruvate hydratase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013576742.1
COORDINATES: similar to AA sequence:RefSeq:WP_013512837.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_017493344.1
COORDINATES: similar to AA sequence:RefSeq:WP_012761813.1
COORDINATES: similar to AA sequence:RefSeq:WP_011494464.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683014.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_014695905.1
COORDINATES: similar to AA sequence:RefSeq:WP_001706790.1
COORDINATES: similar to AA sequence:RefSeq:WP_001568070.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695903.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695902.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695901.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]; GO:0016818 - hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides [Evidence IEA]
conjugative transfer relaxase/helicase TraI
COORDINATES: similar to AA sequence:RefSeq:WP_014695900.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_014695899.1
COORDINATES: similar to AA sequence:RefSeq:WP_019104700.1
GO:0019867 - outer membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014695896.1
conjugal transfer mating-pair stabilization protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_014695895.1
conjugal transfer pilus assembly protein TraH
COORDINATES: similar to AA sequence:RefSeq:WP_014695893.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695892.1
COORDINATES: similar to AA sequence:RefSeq:WP_019105773.1
type-F conjugative transfer system pilin assembly protein TraF
COORDINATES: similar to AA sequence:RefSeq:WP_014695888.1
type-F conjugative transfer system mating-pair stabilization protein TraN
COORDINATES: similar to AA sequence:RefSeq:WP_014695887.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_019104690.1
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_014695884.1
COORDINATES: similar to AA sequence:RefSeq:WP_019105088.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695882.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_014695881.1
type-F conjugative transfer system protein TrbI
COORDINATES: similar to AA sequence:RefSeq:WP_014695880.1
COORDINATES: similar to AA sequence:RefSeq:WP_013200016.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_014695878.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695877.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695876.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695875.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
transcription/translation regulatory transformer protein RfaH
COORDINATES: similar to AA sequence:RefSeq:WP_013512872.1
F-type conjugal transfer pilus assembly protein TraB
COORDINATES: similar to AA sequence:RefSeq:WP_014695873.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695872.1
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: similar to AA sequence:RefSeq:WP_013512869.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_014695870.1
GO:0005576 - extracellular region [Evidence IEA]
type IV conjugative transfer system pilin TraA
COORDINATES: similar to AA sequence:RefSeq:WP_019105067.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695868.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695867.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014695866.1
COORDINATES: similar to AA sequence:RefSeq:WP_001234456.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695864.1
SurA N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004966245.1
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:WP_013199998.1
COORDINATES: similar to AA sequence:RefSeq:WP_004929863.1
COORDINATES: protein motif:HMM:NF018636.2
COORDINATES: similar to AA sequence:RefSeq:WP_015697667.1
COORDINATES: similar to AA sequence:RefSeq:WP_006660034.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611469.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: nucleotide motif:Rfam:14.4:RF01497
AL1L pseudoknot; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:NP_308437.1
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_009639360.1
COORDINATES: similar to AA sequence:RefSeq:NP_308438.1
S-(hydroxymethyl)glutathione dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:NP_414891.4
formaldehyde-responsive transcriptional repressor FrmR
COORDINATES: similar to AA sequence:RefSeq:WP_020706513.1
COORDINATES: similar to AA sequence:RefSeq:WP_020885163.1
COORDINATES: similar to AA sequence:RefSeq:WP_017397564.1
COORDINATES: similar to AA sequence:RefSeq:WP_005093666.1
COORDINATES: similar to AA sequence:RefSeq:WP_017372678.1
zinc-dependent alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004647735.1
COORDINATES: similar to AA sequence:RefSeq:WP_012125290.1
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
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_016919309.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF015925.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611384.1
COORDINATES: similar to AA sequence:RefSeq:WP_017384069.1
COORDINATES: similar to AA sequence:RefSeq:WP_012561117.1
COORDINATES: similar to AA sequence:RefSeq:NP_308337.2
COORDINATES: similar to AA sequence:RefSeq:WP_010671918.1
glutathione-independent formaldehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_009586489.1
COORDINATES: similar to AA sequence:RefSeq:WP_004132572.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578324.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578325.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578326.1
plasmid partitioning/stability family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015572057.1
COORDINATES: similar to AA sequence:RefSeq:WP_008455414.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:WP_000457546.1
GO:0003684 - damaged DNA binding [Evidence IEA]
translesion error-prone DNA polymerase V subunit UmuC
COORDINATES: similar to AA sequence:RefSeq:WP_009639336.1
COORDINATES: similar to AA sequence:RefSeq:WP_005933773.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_001465446.1
COORDINATES: similar to AA sequence:RefSeq:WP_009639334.1
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_012548938.1
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: similar to AA sequence:RefSeq:WP_016193191.1
COORDINATES: similar to AA sequence:RefSeq:WP_003917573.1
COORDINATES: similar to AA sequence:RefSeq:WP_019080654.1
COORDINATES: similar to AA sequence:RefSeq:WP_014542127.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_014683042.1
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014683043.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578408.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683045.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014683046.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611505.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203735.1
COORDINATES: similar to AA sequence:RefSeq:WP_004935531.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203732.1
COORDINATES: similar to AA sequence:RefSeq:WP_004935535.1
COORDINATES: similar to AA sequence:RefSeq:WP_004935539.1
COORDINATES: similar to AA sequence:RefSeq:WP_020239167.1
pyridoxal phosphate-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013203728.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203726.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203725.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203724.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203723.1
COORDINATES: similar to AA sequence:RefSeq:WP_013203722.1
COORDINATES: similar to AA sequence:RefSeq:WP_000779637.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0015221 - lipopolysaccharide transmembrane transporter activity [Evidence IEA]
GO:0015920 - lipopolysaccharide transport [Evidence IEA]
LPS export ABC transporter permease LptF
COORDINATES: similar to AA sequence:RefSeq:WP_013203720.1
LPS export ABC transporter permease LptG
COORDINATES: similar to AA sequence:RefSeq:WP_011042246.1
COORDINATES: similar to AA sequence:RefSeq:WP_001567368.1
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_011988442.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558178.1
COORDINATES: similar to AA sequence:RefSeq:WP_005187330.1
COORDINATES: protein motif:HMM:NF013179.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612074.1
IS110-like element IS5708 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001743396.1
COORDINATES: similar to AA sequence:RefSeq:WP_000019445.1
COORDINATES: similar to AA sequence:RefSeq:NP_414838.2
GO:0016491 - oxidoreductase activity [Evidence IEA]
IS1-like element IS1SD family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_005120221.1
MetQ/NlpA family ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:NP_460348.1
GO:0043546 - molybdopterin cofactor binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:NP_460349.1
COORDINATES: similar to AA sequence:RefSeq:NP_460350.1
COORDINATES: similar to AA sequence:RefSeq:NP_460351.1
tetrathionate respiration histidine kinase TtrS
COORDINATES: similar to AA sequence:RefSeq:WP_005122830.1
tetrathionate respiration response regulator TtrR
COORDINATES: similar to AA sequence:RefSeq:WP_000528119.1
COORDINATES: similar to AA sequence:RefSeq:NP_416498.2
COORDINATES: similar to AA sequence:RefSeq:WP_003032543.1
COORDINATES: similar to AA sequence:RefSeq:WP_015963035.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:NP_414873.1
COORDINATES: similar to AA sequence:RefSeq:NP_308420.1
GO:0008824 - cyanate hydratase activity [Evidence IEA]
GO:0009636 - response to toxic substance [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014230297.1
COORDINATES: similar to AA sequence:RefSeq:WP_001395480.1
IS630-like element ISEc33 family transposase
COORDINATES: similar to AA sequence:RefSeq:YP_005221000.1
IS6-like element IS26 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_003465043.1
COORDINATES: similar to AA sequence:RefSeq:WP_012817690.1
COORDINATES: similar to AA sequence:RefSeq:WP_004098989.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016246479.1
COORDINATES: similar to AA sequence:RefSeq:WP_006326267.1
COORDINATES: protein motif:HMM:NF015889.2
COORDINATES: protein motif:HMM:NF013053.2
COORDINATES: similar to AA sequence:RefSeq:YP_005229637.1
IS110-like element IS4321 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000130816.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000941305.1
COORDINATES: similar to AA sequence:RefSeq:WP_004152098.1
COORDINATES: similar to AA sequence:RefSeq:WP_000065802.1
GO:0008794 - arsenate reductase (glutaredoxin) activity [Evidence IEA]
glutaredoxin-dependent arsenate reductase
COORDINATES: similar to AA sequence:RefSeq:WP_001066652.1
COORDINATES: similar to AA sequence:RefSeq:WP_008786570.1
COORDINATES: similar to AA sequence:RefSeq:WP_000091962.1