Massilia forsythiae strain GN2-R2 plasmid unnamed1, complete sequence.
Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Oxalobacteraceae; Massilia group; Massilia.
Submitted (17-APR-2020) Agricultural Mircrobiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Korea, Republic of
REFSEQ INFORMATION: The reference sequence is identical to\nCP051686.1.\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 :: RS HGAP Assembly v. 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 122x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/04/2022 14:26:57\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 5,437\nCDSs (total) :: 5,323\nGenes (coding) :: 5,204\nCDSs (with protein) :: 5,204\nGenes (RNA) :: 114\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 89\nncRNAs :: 4\nPseudo Genes (total) :: 119\nCDSs (without protein) :: 119\nPseudo Genes (ambiguous residues) :: 0 of 119\nPseudo Genes (frameshifted) :: 31 of 119\nPseudo Genes (incomplete) :: 97 of 119\nPseudo Genes (internal stop) :: 18 of 119\nPseudo Genes (multiple problems) :: 24 of 119\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: similar to AA sequence:RefSeq:WP_019924678.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003201135.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
sulfite exporter TauE/SafE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004637342.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611469.1
GO:0015074 - DNA integration [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_005668850.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611570.1
programmed frameshift; internal stop; 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:WP_007040562.1
COORDINATES: similar to AA sequence:RefSeq:WP_020652642.1
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_005665677.1
COORDINATES: similar to AA sequence:RefSeq:WP_045911956.1
COORDINATES: similar to AA sequence:RefSeq:WP_010850118.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611347.1
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_003117273.1
COORDINATES: similar to AA sequence:RefSeq:WP_017876753.1
COORDINATES: protein motif:HMM:NF012371.2
serine hydrolase domain-containing protein
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011749509.1
COORDINATES: similar to AA sequence:RefSeq:WP_007729734.1
COORDINATES: similar to AA sequence:RefSeq:WP_016236504.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014834018.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004339025.1
COORDINATES: similar to AA sequence:RefSeq:WP_009664311.1
COORDINATES: similar to AA sequence:RefSeq:WP_012081356.1
COORDINATES: similar to AA sequence:RefSeq:WP_020047483.1
COORDINATES: similar to AA sequence:RefSeq:WP_003264826.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_015475364.1
COORDINATES: protein motif:HMM:NF013786.2
GO:0008897 - holo-[acyl-carrier-protein] synthase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
4'-phosphopantetheinyl transferase superfamily protein
COORDINATES: similar to AA sequence:RefSeq:WP_020393729.1
aminotransferase class V-fold PLP-dependent enzyme
COORDINATES: protein motif:HMM:NF024925.2
COORDINATES: protein motif:HMM:NF024829.2
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF019310.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF012873.2
COORDINATES: protein motif:HMM:NF012711.2
COORDINATES: similar to AA sequence:RefSeq:WP_017905123.1
COORDINATES: protein motif:HMM:NF025024.2
COORDINATES: similar to AA sequence:RefSeq:WP_020652655.1
COORDINATES: similar to AA sequence:RefSeq:WP_019920239.1
PLP-dependent aminotransferase family protein
COORDINATES: protein motif:HMM:NF016041.2
COORDINATES: protein motif:HMM:NF012382.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611328.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611493.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611583.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF019313.2
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_001166627.1
GO:0001228 - DNA-binding transcription activator activity, RNA polymerase II-specific [Evidence IEA]
Hg(II)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:YP_005229639.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229640.1
GO:0045340 - mercury ion binding [Evidence IEA]
mercury resistance system periplasmic binding protein MerP
COORDINATES: similar to AA sequence:RefSeq:WP_017901292.1
COORDINATES: similar to AA sequence:RefSeq:WP_000281123.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001277466.1
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005229645.1
COORDINATES: similar to AA sequence:RefSeq:WP_000993245.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087333.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF018290.2
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:NF018148.2
COORDINATES: similar to AA sequence:RefSeq:WP_016834890.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_020795726.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012355557.1
COORDINATES: similar to AA sequence:RefSeq:WP_011134617.1
GO:0016615 - malate dehydrogenase activity [Evidence IEA]
GO:0006108 - malate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008041681.1
COORDINATES: similar to AA sequence:RefSeq:WP_019924683.1
COORDINATES: similar to AA sequence:RefSeq:WP_011312782.1
COORDINATES: similar to AA sequence:RefSeq:WP_020701237.1
GO:0016021 - integral component of membrane [Evidence IEA]
putative sulfate exporter family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_011982265.1
COORDINATES: similar to AA sequence:RefSeq:WP_012631194.1
iron export ABC transporter permease subunit FetB
COORDINATES: similar to AA sequence:RefSeq:WP_008451414.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015879607.1
COORDINATES: similar to AA sequence:RefSeq:WP_017451194.1
COORDINATES: similar to AA sequence:RefSeq:WP_014086135.1
voltage-gated chloride channel family 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_009622632.1
COORDINATES: similar to AA sequence:RefSeq:WP_012723166.1
GO:0004634 - phosphopyruvate hydratase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018911774.1
GO:0004619 - phosphoglycerate mutase activity [Evidence IEA]
2,3-bisphosphoglycerate-dependent phosphoglycerate mutase
COORDINATES: similar to AA sequence:RefSeq:WP_006464799.1
COORDINATES: similar to AA sequence:RefSeq:WP_011617133.1