Peteryoungia desertarenae strain ADMK78 plasmid pPRADMK78_02.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Rhizobiaceae; Peteryoungia.
Genome sequence of Rhizobium sp strain ADMK78
Submitted (29-JUN-2020) National Centre for Microbial Resource, National Centre for Cell Science, First floor, Central Tower, Sai Trinity Building Garware Circle, Sutarwadi, Pune, Maharashtra 411021, India
Submitted (20-MAY-2019) National Centre for Microbial Resource, National Centre for Cell Science, First floor, Central Tower, Sai Trinity Building Garware Circle, Sutarwadi, Pune, Maharashtra 411021, India
REFSEQ INFORMATION: The reference sequence is identical to\nCP058352.1.\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 Date :: 19-JUN-2020\nAssembly Method :: Canu v. v. 2.0\nAssembly Name :: tig\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 82.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 03:00:06\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) :: 4,181\nCDSs (total) :: 4,115\nGenes (coding) :: 4,033\nCDSs (with protein) :: 4,033\nGenes (RNA) :: 66\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 4\nPseudo Genes (total) :: 82\nCDSs (without protein) :: 82\nPseudo Genes (ambiguous residues) :: 0 of 82\nPseudo Genes (frameshifted) :: 35 of 82\nPseudo Genes (incomplete) :: 52 of 82\nPseudo Genes (internal stop) :: 14 of 82\nPseudo Genes (multiple problems) :: 18 of 82\n##Genome-Annotation-Data-END##
type strain of Peteryoungia desertarenae
COORDINATES: similar to AA sequence:RefSeq:WP_009573302.1
incomplete; too short partial abutting assembly gap; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003551676.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003501138.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018497101.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_018517764.1
COORDINATES: protein motif:HMM:NF025253.2
GO:0098024 - virus tail, fiber [Evidence IEA]
GO:0046718 - viral entry into host cell [Evidence IEA]; GO:0019062 - virion attachment to host cell [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003501134.1
COORDINATES: similar to AA sequence:RefSeq:WP_010687710.1
COORDINATES: similar to AA sequence:RefSeq:WP_007427784.1
COORDINATES: similar to AA sequence:RefSeq:WP_008129339.1
COORDINATES: similar to AA sequence:RefSeq:WP_012340186.1
COORDINATES: protein motif:HMM:NF013594.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020812900.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_019963277.1
GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]; GO:0051290 - protein heterotetramerization [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003523455.1
COORDINATES: protein motif:HMM:NF017183.2
COORDINATES: similar to AA sequence:RefSeq:WP_003501116.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501115.1
phage integrase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003501113.1
COORDINATES: similar to AA sequence:RefSeq:WP_019086241.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501110.1
COORDINATES: similar to AA sequence:RefSeq:WP_014526728.1
COORDINATES: similar to AA sequence:RefSeq:WP_018409486.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020009243.1
COORDINATES: similar to AA sequence:RefSeq:WP_003546845.1
COORDINATES: similar to AA sequence:RefSeq:WP_013419117.1
COORDINATES: similar to AA sequence:RefSeq:WP_013419116.1
COORDINATES: similar to AA sequence:RefSeq:WP_015923022.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
type ISP restriction/modification enzyme