Pontibrevibacter nitratireducens strain ALG8 plasmid unnamed2, 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\nCP049813.1.\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+
GO:0005509 - calcium ion binding [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012573.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF023376.2
COORDINATES: similar to AA sequence:RefSeq:WP_017484804.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0003824 - catalytic activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF012398.2
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012311.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013718.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF019604.2
COORDINATES: similar to AA sequence:RefSeq:WP_006413931.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013952198.1
GO:0008701 - 4-hydroxy-2-oxovalerate aldolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014752883.1
GO:0008774 - acetaldehyde dehydrogenase (acetylating) activity [Evidence IEA]
acetaldehyde dehydrogenase (acetylating)
COORDINATES: similar to AA sequence:RefSeq:WP_009720174.1
GO:0003824 - catalytic activity [Evidence IEA]
fumarylacetoacetate hydrolase family protein
COORDINATES: protein motif:HMM:NF016777.2
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF013757.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008246047.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: protein motif:HMM:NF024966.2
GO:0019439 - aromatic compound catabolic process [Evidence IEA]; GO:0006725 - cellular aromatic compound metabolic process [Evidence IEA]
aromatic-ring-hydroxylating dioxygenase subunit beta
COORDINATES: protein motif:HMM:NF013098.2
COORDINATES: similar to AA sequence:RefSeq:WP_004338040.1
COORDINATES: similar to AA sequence:RefSeq:WP_011874364.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]
bifunctional 3-phenylpropionate/cinnamic acid dioxygenase ferredoxin subunit
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: protein motif:HMM:NF015445.2
C4-dicarboxylate TRAP transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF016200.2
GO:0005886 - plasma membrane [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0015740 - C4-dicarboxylate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008335908.1
GO:0008643 - carbohydrate transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF025292.2
lipocalin-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003880165.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611844.1
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_015072591.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - DNA transposition [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.
COORDINATES: similar to AA sequence:RefSeq:WP_076611960.1
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_009506873.1
COORDINATES: protein motif:HMM:NF019322.2
COORDINATES: protein motif:HMM:NF015905.2
GO:0016829 - lyase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016844204.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
TRAP transporter substrate-binding protein DctP
COORDINATES: protein motif:HMM:NF018513.2
GO:0015556 - C4-dicarboxylate transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007681032.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012885.2
COORDINATES: similar to AA sequence:RefSeq:WP_012476889.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012177100.1
COORDINATES: protein motif:HMM:NF015338.2
endonuclease/exonuclease/phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611562.1
GO:0015074 - DNA integration [Evidence IEA]
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.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008230107.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815535.1
GSU2403 family nucleotidyltransferase fold protein
COORDINATES: protein motif:HMM:NF024795.2
COORDINATES: protein motif:HMM:NF012655.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018303350.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019955942.1
COORDINATES: similar to AA sequence:RefSeq:WP_003606158.1
PqqD family peptide modification chaperone
COORDINATES: protein motif:HMM:NF027890.2
COORDINATES: similar to AA sequence:RefSeq:WP_012454254.1
COORDINATES: protein motif:HMM:NF012206.1
COORDINATES: protein motif:HMM:NF024635.2
COORDINATES: protein motif:HMM:NF024880.2
GO:0008171 - O-methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018001702.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_018001703.1
COORDINATES: similar to AA sequence:RefSeq:WP_018001704.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF014385.2
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01730.1