Enterobacter roggenkampii strain DSM 16690 plasmid pDSMZ16690, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
Comprehensive Genome Analysis of Carbapenemase-Producing Enterobacter spp.: New Insights into Phylogeny, Population Structure, and Resistance Mechanisms
Submitted (09-SEP-2016) Informatics Core Services, JCVI, 9704 Medical Center Drive, Rockville, MD 20850, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP017185.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: HGAP v. 3.0.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 13.1x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 01:08:58\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) :: 4,645\nCDSs (total) :: 4,531\nGenes (coding) :: 4,445\nCDSs (with protein) :: 4,445\nGenes (RNA) :: 114\nrRNAs :: 9, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 9, 8, 8 (5S, 16S, 23S)\ntRNAs :: 83\nncRNAs :: 6\nPseudo Genes (total) :: 86\nCDSs (without protein) :: 86\nPseudo Genes (ambiguous residues) :: 0 of 86\nPseudo Genes (frameshifted) :: 52 of 86\nPseudo Genes (incomplete) :: 34 of 86\nPseudo Genes (internal stop) :: 16 of 86\nPseudo Genes (multiple problems) :: 14 of 86\nPseudo Genes (short protein) :: 1 of 86\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Enterobacter roggenkampii
COORDINATES: similar to AA sequence:RefSeq:WP_011145548.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001726338.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
H-NS family nucleoid-associated regulatory protein
COORDINATES: similar to AA sequence:RefSeq:YP_005221000.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:YP_005220840.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611932.1
COORDINATES: similar to AA sequence:RefSeq:WP_004026069.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_000127484.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013676.2
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000998048.1
frameshifted; internal stop; 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_002224342.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_017891100.1
COORDINATES: similar to AA sequence:RefSeq:WP_001280606.1
COORDINATES: protein motif:HMM:NF024954.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011906492.1
COORDINATES: similar to AA sequence:RefSeq:WP_012548938.1
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: similar to AA sequence:RefSeq:WP_016479974.1
COORDINATES: similar to AA sequence:RefSeq:WP_014831789.1
COORDINATES: similar to AA sequence:RefSeq:WP_014063905.1
COORDINATES: similar to AA sequence:RefSeq:WP_006120404.1
GO:0006276 - plasmid maintenance [Evidence IEA]
incFII family plasmid replication initiator RepA
COORDINATES: protein motif:HMM:TIGR03475.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000081846.1
COORDINATES: similar to AA sequence:RefSeq:WP_001486778.1
COORDINATES: similar to AA sequence:RefSeq:WP_001068034.1
type-F conjugative transfer system pilin acetylase TraX
COORDINATES: similar to AA sequence:RefSeq:WP_000949137.1
conjugative transfer relaxase/helicase TraI
COORDINATES: similar to AA sequence:RefSeq:WP_001733785.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:NP_312288.2
COORDINATES: similar to AA sequence:RefSeq:WP_000513068.1
COORDINATES: similar to AA sequence:RefSeq:NP_490587.1
conjugal transfer complement resistance protein TraT
COORDINATES: similar to AA sequence:RefSeq:WP_001403284.1
COORDINATES: similar to AA sequence:RefSeq:WP_000963403.1
conjugal transfer mating-pair stabilization protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_001808382.1
conjugal transfer pilus assembly protein TraH
COORDINATES: similar to AA sequence:RefSeq:WP_001525738.1
type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB
COORDINATES: similar to AA sequence:RefSeq:WP_001403279.1
type-F conjugative transfer system pilin assembly protein TraF
COORDINATES: similar to AA sequence:RefSeq:WP_000821868.1
type-F conjugative transfer system mating-pair stabilization protein TraN
COORDINATES: similar to AA sequence:RefSeq:WP_008455339.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_001525842.1
COORDINATES: similar to AA sequence:RefSeq:WP_005322002.1
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_013578405.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_013578404.1
COORDINATES: similar to AA sequence:RefSeq:WP_000715590.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_001525791.1
type-F conjugative transfer system protein TrbI
COORDINATES: similar to AA sequence:RefSeq:WP_000714170.1
COORDINATES: similar to AA sequence:RefSeq:WP_000724456.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_000786061.1
GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000024510.1
F-type conjugal transfer pilus assembly protein TraB
COORDINATES: similar to AA sequence:RefSeq:WP_008455355.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_001395451.1
type IV conjugative transfer system protein TraE
COORDINATES: similar to AA sequence:RefSeq:WP_032490353.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_008455360.1
type IV conjugative transfer system pilin TraA
COORDINATES: protein motif:HMM:NF017333.2
COORDINATES: similar to AA sequence:RefSeq:WP_005320933.1
LuxR C-terminal-related transcriptional regulator
COORDINATES: protein motif:HMM:NF024950.2
COORDINATES: similar to AA sequence:RefSeq:WP_008455364.1
conjugal transfer relaxosome DNA-binding protein TraM
COORDINATES: similar to AA sequence:RefSeq:WP_008455366.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000556933.1
COORDINATES: similar to AA sequence:RefSeq:WP_000080850.1
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_000961624.1
COORDINATES: similar to AA sequence:RefSeq:WP_008455374.1
COORDINATES: similar to AA sequence:RefSeq:WP_001534946.1
COORDINATES: protein motif:HMM:NF018044.2
COORDINATES: similar to AA sequence:RefSeq:WP_000141580.1
COORDINATES: similar to AA sequence:RefSeq:WP_001299774.1
COORDINATES: similar to AA sequence:RefSeq:WP_008324185.1
COORDINATES: similar to AA sequence:RefSeq:WP_008324186.1
COORDINATES: similar to AA sequence:RefSeq:WP_002211744.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_009654057.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229748.1
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_000108571.1
COORDINATES: similar to AA sequence:RefSeq:WP_013087145.1
COORDINATES: similar to AA sequence:RefSeq:WP_019843195.1
COORDINATES: similar to AA sequence:RefSeq:NP_052645.1
COORDINATES: similar to AA sequence:RefSeq:WP_004113322.1
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_000600201.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:WP_000457549.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229774.1
COORDINATES: similar to AA sequence:RefSeq:NP_490542.1
COORDINATES: similar to AA sequence:RefSeq:WP_000497474.1
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_000840805.1
COORDINATES: similar to AA sequence:RefSeq:NP_490541.1
COORDINATES: similar to AA sequence:RefSeq:WP_006118557.1
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:NP_052630.2
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:NP_052628.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611476.1
COORDINATES: similar to AA sequence:RefSeq:WP_019104927.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611384.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017694190.1
COORDINATES: similar to AA sequence:RefSeq:WP_000098783.1
frameshifted; internal stop; 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_004874411.1
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_000343613.1
COORDINATES: protein motif:HMM:NF023351.2
COORDINATES: similar to AA sequence:RefSeq:WP_004118092.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611921.1
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000907654.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558297.1
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: protein motif:HMM:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004966400.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
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: protein motif:HMM:NF014417.2
transcription termination/antitermination NusG family protein
COORDINATES: protein motif:HMM:NF016581.2
FaeA/PapI family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011146754.1
GO:0005198 - structural molecule activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011146011.1
phage tail sheath C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011145987.1
COORDINATES: protein motif:HMM:NF039278.1
COORDINATES: similar to AA sequence:RefSeq:WP_011145967.1
COORDINATES: protein motif:HMM:NF016595.2
COORDINATES: similar to AA sequence:RefSeq:WP_015834376.1
COORDINATES: protein motif:HMM:NF039577.1
COORDINATES: protein motif:HMM:NF039901.1
contractile injection system tape measure protein
COORDINATES: protein motif:HMM:NF012234.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025431.2
COORDINATES: similar to AA sequence:RefSeq:WP_005346908.1
COORDINATES: similar to AA sequence:RefSeq:WP_014884687.1
COORDINATES: protein motif:HMM:NF026981.2
COORDINATES: similar to AA sequence:RefSeq:WP_000174402.1
COORDINATES: similar to AA sequence:RefSeq:WP_004883363.1
IS21-like element ISEc10 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_001002160.1
COORDINATES: similar to AA sequence:RefSeq:WP_012988339.1
COORDINATES: similar to AA sequence:RefSeq:NP_460511.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:NP_460510.1
COORDINATES: similar to AA sequence:RefSeq:WP_004187017.1
COORDINATES: similar to AA sequence:RefSeq:WP_019104956.1
COORDINATES: similar to AA sequence:RefSeq:WP_013365374.1
integrase core domain-containing protein
COORDINATES: protein motif:HMM:NF015462.2
GO:0005576 - extracellular region [Evidence IEA]
GO:0008294 - calcium- and calmodulin-responsive adenylate cyclase activity [Evidence IEA]
anthrax toxin-like adenylyl cyclase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:NP_490533.1
internal stop; 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:NF012790.2
rhodanese-like domain-containing protein