Pontibrevibacter nitratireducens strain ALG8 plasmid unnamed3, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Pontibrevibacter.
Complete genome sequence of Monaibacterium sp. ALG8 with diverse plasmids
Submitted (04-MAR-2020) College of Life Science, Zhejiang Sci-Tech University, 928 No.2 Avenue, Xiasha Higher Education Zone, HangZhou 310018, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP049814.1.\nBacteria and source DNA available from Cong Sun.\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 :: Unicycler v. DEC-2019\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Oxford Nanopore; Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/27/2023 03:21:02\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,480\nCDSs (total) :: 3,427\nGenes (coding) :: 3,361\nCDSs (with protein) :: 3,361\nGenes (RNA) :: 53\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 44\nncRNAs :: 3\nPseudo Genes (total) :: 66\nCDSs (without protein) :: 66\nPseudo Genes (ambiguous residues) :: 0 of 66\nPseudo Genes (frameshifted) :: 45 of 66\nPseudo Genes (incomplete) :: 41 of 66\nPseudo Genes (internal stop) :: 12 of 66\nPseudo Genes (multiple problems) :: 24 of 66\nCRISPR Arrays :: 2\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:NF016800.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009819724.1
frameshifted; internal stop; 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_009819701.1
GO:0110001 - toxin-antitoxin complex [Evidence IEA]
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_009819700.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820102.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009807542.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007120641.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187358.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807539.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009820261.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807537.1
COORDINATES: similar to AA sequence:RefSeq:WP_010308590.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187077.1
type II toxin-antitoxin system PrlF family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_007120648.1
type II toxin-antitoxin system YhaV family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019956866.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819682.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503768.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327427.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187348.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503771.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187346.1
COORDINATES: protein motif:HMM:NF019151.2
COORDINATES: similar to AA sequence:RefSeq:WP_009813554.1
COORDINATES: similar to AA sequence:RefSeq:WP_019087483.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009797785.1
COORDINATES: similar to AA sequence:RefSeq:WP_009797786.1
COORDINATES: similar to AA sequence:RefSeq:WP_005878692.1
COORDINATES: similar to AA sequence:RefSeq:WP_016869179.1
multiubiquitin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018280554.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501438.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820257.1
COORDINATES: similar to AA sequence:RefSeq:WP_011536569.1
COORDINATES: similar to AA sequence:RefSeq:WP_018390189.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007120663.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807938.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009807937.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009815557.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_010400291.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815559.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815560.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815561.1
COORDINATES: similar to AA sequence:RefSeq:WP_009808070.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820227.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820228.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327387.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187157.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_009807512.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820232.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327379.1
GO:0016798 - hydrolase activity, acting on glycosyl bonds [Evidence IEA]
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009503800.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807508.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008327373.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_009808058.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327370.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282965.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120686.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820241.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611562.1
GO:0015074 - DNA integration [Evidence IEA]
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.
integrase core domain-containing protein
COORDINATES: protein motif:HMM:NF015338.2
endonuclease/exonuclease/phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012177100.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120060.1
COORDINATES: similar to AA sequence:RefSeq:WP_010392456.1
COORDINATES: similar to AA sequence:RefSeq:WP_007427636.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012179317.1
bifunctional sulfate adenylyltransferase/adenylylsulfate kinase
COORDINATES: similar to AA sequence:RefSeq:WP_017999660.1
COORDINATES: protein motif:HMM:NF013630.2
GO:0097367 - carbohydrate derivative binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014236853.1
GO:0008483 - transaminase activity [Evidence IEA]
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_012302779.1
FdtA/QdtA family cupin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011396283.1
COORDINATES: protein motif:HMM:NF012360.2
COORDINATES: protein motif:HMM:NF012759.2
COORDINATES: protein motif:HMM:NF020459.2
GO:0016788 - hydrolase activity, acting on ester bonds [Evidence IEA]
COORDINATES: protein motif:HMM:NF013830.2
GO:0016757 - glycosyltransferase activity [Evidence IEA]
GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF024914.2
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: similar to AA sequence:RefSeq:WP_009813517.1
COORDINATES: similar to AA sequence:RefSeq:WP_008939644.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009814463.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014880791.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011568241.1
GO:0019285 - glycine betaine biosynthetic process from choline [Evidence IEA]; GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007255272.1
GO:0008484 - sulfuric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010438474.1
GO:0008802 - betaine-aldehyde dehydrogenase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0019285 - glycine betaine biosynthetic process from choline [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009176264.1
GO:0008812 - choline dehydrogenase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015748.2
WecB/TagA/CpsF family glycosyltransferase
COORDINATES: protein motif:HMM:NF016145.2
polysaccharide pyruvyl transferase family protein
COORDINATES: protein motif:HMM:NF016328.2
Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C-terminal domain
COORDINATES: protein motif:HMM:NF024832.2
COORDINATES: similar to AA sequence:RefSeq:WP_008027553.1
COORDINATES: protein motif:HMM:NF019843.2
COORDINATES: similar to AA sequence:RefSeq:WP_019294853.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
GO:0019305 - dTDP-rhamnose biosynthetic process [Evidence IEA]; GO:0009243 - O antigen biosynthetic process [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: similar to AA sequence:RefSeq:WP_011748407.1
GO:0008831 - dTDP-4-dehydrorhamnose reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005854457.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019294850.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005862598.1
GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]
UDP-glucose/GDP-mannose dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003044777.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: protein motif:HMM:NF012376.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01007.1
GO:0045226 - extracellular polysaccharide biosynthetic process [Evidence IEA]
polysaccharide biosynthesis tyrosine autokinase
COORDINATES: similar to AA sequence:RefSeq:WP_005608859.1
GO:0003978 - UDP-glucose 4-epimerase activity [Evidence IEA]
GO:0006012 - galactose metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009158092.1
GO:0004476 - mannose-6-phosphate isomerase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase
COORDINATES: protein motif:HMM:NF024831.2
COORDINATES: protein motif:HMM:NF024860.2
GO:0008146 - sulfotransferase activity [Evidence IEA]
sulfotransferase domain-containing protein
GO:0008755 - O antigen polymerase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024968.2
COORDINATES: similar to AA sequence:RefSeq:WP_020039445.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889379.1
COORDINATES: similar to AA sequence:RefSeq:WP_011536552.1
COORDINATES: protein motif:HMM:NF014273.2
COORDINATES: protein motif:HMM:NF012573.2