Marinobacter salarius strain SMR5 plasmid pSMR5, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Pseudomonadales; Marinobacteraceae; Marinobacter.
Genome Sequence of Marinobacter salarius strain SMR5 Isolated from a culture of the Diatom Skeletonema marinoi
Submitted (24-APR-2017) Department of Marine Sciences, University of Gothenburg, Carl Skottbergsgata 22B, Gothenburg 413 19, Sweden
REFSEQ INFORMATION: The reference sequence is identical to\nCP020932.1.\nBacteria and source DNA available from Adrian K. Clarke, Department\nof Biological and Environmental Sciences, University of Gothenburg.\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 :: Canu v. 1.3\nAssembly Name :: MarSalSMR5\nLong Assembly Name :: Marinobacter salarius strain SMR5\nGenome Coverage :: 213.58x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/05/2022 03:49:01\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,286\nCDSs (total) :: 4,223\nGenes (coding) :: 4,196\nCDSs (with protein) :: 4,196\nGenes (RNA) :: 63\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 4\nPseudo Genes (total) :: 27\nCDSs (without protein) :: 27\nPseudo Genes (ambiguous residues) :: 0 of 27\nPseudo Genes (frameshifted) :: 7 of 27\nPseudo Genes (incomplete) :: 21 of 27\nPseudo Genes (internal stop) :: 5 of 27\nPseudo Genes (multiple problems) :: 6 of 27\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+.
COORDINATES: protein motif:HMM:NF018894.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007352332.1
COORDINATES: protein motif:HMM:NF015146.2
COORDINATES: similar to AA sequence:RefSeq:WP_000369451.1
COORDINATES: protein motif:HMM:NF012403.2
COORDINATES: similar to AA sequence:RefSeq:WP_011783384.1
COORDINATES: protein motif:HMM:NF016258.2
outer membrane protein assembly factor BamE
COORDINATES: protein motif:HMM:NF013658.2
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: similar to AA sequence:RefSeq:WP_011783189.1
COORDINATES: protein motif:HMM:TIGR03737.1
COORDINATES: protein motif:HMM:NF025810.2
COORDINATES: similar to AA sequence:RefSeq:WP_011783192.1
COORDINATES: protein motif:HMM:TIGR03734.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783268.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007351647.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783203.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003161172.1
COORDINATES: similar to AA sequence:RefSeq:WP_008173589.1
COORDINATES: protein motif:HMM:NF016362.2
COORDINATES: similar to AA sequence:RefSeq:WP_011783219.1
GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011783220.1
COORDINATES: similar to AA sequence:RefSeq:WP_007351470.1
Members of this family include DotD of type IVB secretion systems and TraH of plasmid conjugative plasmid systems, both lipoproteins; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007351469.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783223.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783224.1
COORDINATES: protein motif:HMM:TIGR04346.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783228.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783230.1
COORDINATES: protein motif:HMM:NF021128.2
COORDINATES: protein motif:HMM:NF025843.2
helix-hairpin-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783237.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783239.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783240.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783243.1
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_011783244.1
COORDINATES: similar to AA sequence:RefSeq:WP_018404605.1
COORDINATES: similar to AA sequence:RefSeq:WP_008295687.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018403059.1
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_014421553.1
GO:0001228 - DNA-binding transcription activator activity, RNA polymerase II-specific [Evidence IEA]
Hg(II)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017901444.1
mercuric transporter MerT family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006911921.1
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: similar to AA sequence:RefSeq:WP_019862331.1
COORDINATES: similar to AA sequence:RefSeq:WP_014029134.1
COORDINATES: similar to AA sequence:RefSeq:WP_003102669.1
COORDINATES: similar to AA sequence:RefSeq:WP_015281219.1
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_007349242.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006911913.1
COORDINATES: similar to AA sequence:RefSeq:WP_006911912.1
COORDINATES: similar to AA sequence:RefSeq:WP_007151719.1
COORDINATES: similar to AA sequence:RefSeq:WP_007151718.1
COORDINATES: protein motif:HMM:NF024881.2
COORDINATES: protein motif:HMM:TIGR02937.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF014312.2
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008946218.1
COORDINATES: similar to AA sequence:RefSeq:WP_018404620.1
GO:0045340 - mercury ion binding [Evidence IEA]
mercury resistance system periplasmic binding protein MerP
COORDINATES: similar to AA sequence:RefSeq:WP_007151711.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF023743.2
COORDINATES: similar to AA sequence:RefSeq:WP_011711679.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_008295667.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011783278.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011783277.1
COORDINATES: protein motif:HMM:NF014626.2
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_011783247.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783249.1
COORDINATES: protein motif:HMM:NF016281.2
COORDINATES: similar to AA sequence:RefSeq:WP_007351437.1
COORDINATES: protein motif:HMM:NF019880.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003896 - DNA primase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
CHC2 zinc finger domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783253.1
COORDINATES: similar to AA sequence:RefSeq:WP_003093888.1
histone-like nucleoid-structuring protein, MvaT/MvaU family
COORDINATES: similar to AA sequence:RefSeq:WP_007352351.1
COORDINATES: protein motif:HMM:NF012798.2
ankyrin repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783288.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783290.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783293.1
prepilin-type N-terminal cleavage/methylation domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783294.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783295.1
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783296.1
COORDINATES: protein motif:HMM:NF018562.2
COORDINATES: similar to AA sequence:RefSeq:WP_011783299.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783300.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783301.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783302.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]; GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007153840.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783303.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783305.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783306.1
COORDINATES: protein motif:HMM:NF013625.2
peptidoglycan-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011783309.1
COORDINATES: similar to AA sequence:RefSeq:WP_011783310.1
DotH/IcmK family type IV secretion protein
COORDINATES: similar to AA sequence:RefSeq:WP_018404910.1
DotI/IcmL family type IV secretion protein
COORDINATES: protein motif:HMM:NF037909.2
COORDINATES: protein motif:HMM:TIGR02607.1
COORDINATES: protein motif:HMM:NF015076.2
COORDINATES: protein motif:HMM:NF015648.2
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF014898.2
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: protein motif:HMM:NF024258.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018404952.1
COORDINATES: protein motif:HMM:NF019151.2
COORDINATES: protein motif:HMM:NF024621.2
COORDINATES: protein motif:HMM:NF012311.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014577682.1
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:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611199.1
programmed frameshift; 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_008175529.1