Methylobacterium phyllosphaerae strain CBMB27 plasmid CBMB27-p1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Methylobacteriaceae; Methylobacterium.
Complete genome sequencing and analysis of CBMB27, Methylobacterium phyllosphaerae isolated from leaf tissues of rice (Oryza sativa L.)
Submitted (23-APR-2016) Department of Industrial Plant Science and technology, Chungbuk National University, Seongbon-ro 410, Cheongju, Chungbuk 361-763, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP015368.1.\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/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: CLC NGS Cell v. 2.3.0\nGenome Coverage :: 182.47\nSequencing Technology :: PacBio; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 03:40:00\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) :: 5,844\nCDSs (total) :: 5,768\nGenes (coding) :: 5,663\nCDSs (with protein) :: 5,663\nGenes (RNA) :: 76\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 59\nncRNAs :: 5\nPseudo Genes (total) :: 105\nCDSs (without protein) :: 105\nPseudo Genes (ambiguous residues) :: 0 of 105\nPseudo Genes (frameshifted) :: 43 of 105\nPseudo Genes (incomplete) :: 69 of 105\nPseudo Genes (internal stop) :: 18 of 105\nPseudo Genes (multiple problems) :: 23 of 105\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Methylobacterium phyllosphaerae
COORDINATES: similar to AA sequence:RefSeq:WP_020090804.1
GO:0015288 - porin activity [Evidence IEA]
GO:0055085 - transmembrane transport [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_003605489.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012222277.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF024306.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013166974.1
COORDINATES: protein motif:HMM:NF023737.2
sugar dehydrogenase complex small subunit
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_004616680.1
COORDINATES: protein motif:HMM:NF019324.2
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: protein motif:HMM:NF024180.2
COORDINATES: similar to AA sequence:RefSeq:WP_019997404.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012606258.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012778790.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF024824.2
COORDINATES: similar to AA sequence:RefSeq:WP_012778771.1
COORDINATES: similar to AA sequence:RefSeq:WP_012561406.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF020452.2
GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012329842.1
COORDINATES: similar to AA sequence:RefSeq:WP_019818036.1
COORDINATES: protein motif:HMM:NF025639.2
COORDINATES: similar to AA sequence:RefSeq:WP_012251879.1
COORDINATES: protein motif:HMM:NF012428.2
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]; GO:0008483 - transaminase activity [Evidence IEA]
aminotransferase class III-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_076611538.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_006411212.1
COORDINATES: similar to AA sequence:RefSeq:WP_041371609.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611868.1
COORDINATES: protein motif:HMM:NF003417.0
COORDINATES: similar to AA sequence:RefSeq:WP_014670016.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611778.1
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611126.1
COORDINATES: similar to AA sequence:RefSeq:WP_020041008.1
COORDINATES: similar to AA sequence:RefSeq:WP_004299423.1
IS3-like element ISMra4 family transposase
COORDINATES: protein motif:HMM:NF012376.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003607030.1
COORDINATES: similar to AA sequence:RefSeq:WP_003603930.1
COORDINATES: protein motif:HMM:NF013559.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014198466.1
COORDINATES: similar to AA sequence:RefSeq:WP_012753604.1
COORDINATES: similar to AA sequence:RefSeq:WP_003596563.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012338196.1
COORDINATES: protein motif:HMM:NF015431.2
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_012045970.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015983.2
COORDINATES: similar to AA sequence:RefSeq:WP_007561056.1
GO:0008236 - serine-type peptidase activity [Evidence IEA]
prolyl oligopeptidase family serine peptidase
COORDINATES: similar to AA sequence:RefSeq:WP_012779275.1
COORDINATES: protein motif:HMM:NF014021.2
COORDINATES: protein motif:HMM:NF012392.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012779272.1
COORDINATES: similar to AA sequence:RefSeq:WP_012455661.1
COORDINATES: similar to AA sequence:RefSeq:WP_007567330.1
COORDINATES: similar to AA sequence:RefSeq:WP_010687703.1
COORDINATES: similar to AA sequence:RefSeq:WP_015329019.1
COORDINATES: similar to AA sequence:RefSeq:WP_007558256.1
COORDINATES: similar to AA sequence:RefSeq:WP_018044321.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: protein motif:HMM:NF021897.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: similar to AA sequence:RefSeq:WP_012752640.1
COORDINATES: similar to AA sequence:RefSeq:WP_011053314.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578979.1
COORDINATES: similar to AA sequence:RefSeq:WP_016919155.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578802.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611628.1
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:WP_020096452.1
COORDINATES: similar to AA sequence:RefSeq:WP_012606256.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611869.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015932582.1