Rhizobium oryzihabitans strain M15 plasmid p8, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Rhizobiaceae; Rhizobium/Agrobacterium group; Rhizobium.
Plant-Promoting Endophytic Bacterium Rhizobium oryzihabitans sp. nov., Isolated from the Root of Rice
Submitted (06-FEB-2020) Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, zhongguancunnandajie, beijing, beijing 100081, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP048640.1.\nBacteria and source DNA available from Key Laboratory of Microbial\nResources Collection and Preservation.\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 :: JUN-2018\nAssembly Method :: HGAP4 v. 2018-06; CANU v. 1.6\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 150.0x\nSequencing Technology :: Illumina miseq+Pacbio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 02:03:37\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) :: 5,749\nCDSs (total) :: 5,670\nGenes (coding) :: 5,255\nCDSs (with protein) :: 5,255\nGenes (RNA) :: 79\nrRNAs :: 6, 4, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 4, 6 (5S, 16S, 23S)\ntRNAs :: 59\nncRNAs :: 4\nPseudo Genes (total) :: 415\nCDSs (without protein) :: 415\nPseudo Genes (ambiguous residues) :: 0 of 415\nPseudo Genes (frameshifted) :: 352 of 415\nPseudo Genes (incomplete) :: 76 of 415\nPseudo Genes (internal stop) :: 8 of 415\nPseudo Genes (multiple problems) :: 21 of 415\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type material of Rhizobium oryzihabitans
COORDINATES: similar to AA sequence:RefSeq:WP_003501005.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012774.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003501082.1
GO:0004803 - transposase activity [Evidence IEA]
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_012654892.1
COORDINATES: similar to AA sequence:RefSeq:WP_012654893.1
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_043765841.1
COORDINATES: similar to AA sequence:RefSeq:WP_012760230.1
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_006724018.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_018096619.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_003518564.1
COORDINATES: similar to AA sequence:RefSeq:WP_007565534.1
COORDINATES: similar to AA sequence:RefSeq:WP_007565536.1
COORDINATES: protein motif:HMM:NF024867.2
COORDINATES: similar to AA sequence:RefSeq:WP_043766079.1
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_019087712.1
COORDINATES: similar to AA sequence:RefSeq:WP_000008826.1
COORDINATES: similar to AA sequence:RefSeq:WP_007538468.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501078.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003501076.1
COORDINATES: similar to AA sequence:RefSeq:WP_012564872.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501072.1
mercuric transporter MerT family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010661779.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011982997.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501009.1
COORDINATES: similar to AA sequence:RefSeq:WP_014330304.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501015.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_009563871.1
COORDINATES: similar to AA sequence:RefSeq:WP_009469531.1
COORDINATES: similar to AA sequence:RefSeq:WP_018482927.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003910 - DNA ligase (ATP) activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010913315.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:TIGR00180.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_013761074.1
COORDINATES: protein motif:HMM:NF015831.2
invasion associated locus B family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013760953.1
COORDINATES: protein motif:HMM:NF018381.2
COORDINATES: similar to AA sequence:RefSeq:WP_006339488.1
COORDINATES: protein motif:HMM:NF024949.2
COORDINATES: similar to AA sequence:RefSeq:WP_003501034.1
COORDINATES: similar to AA sequence:RefSeq:WP_009469559.1
COORDINATES: similar to AA sequence:RefSeq:WP_017268587.1
COORDINATES: similar to AA sequence:RefSeq:WP_014330879.1
COORDINATES: similar to AA sequence:RefSeq:WP_012653021.1
GO:0016798 - hydrolase activity, acting on glycosyl bonds [Evidence IEA]
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011971088.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_014531077.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_009469555.1
COORDINATES: similar to AA sequence:RefSeq:WP_014330884.1
COORDINATES: similar to AA sequence:RefSeq:WP_013845318.1
COORDINATES: similar to AA sequence:RefSeq:WP_007791668.1
COORDINATES: similar to AA sequence:RefSeq:WP_007791669.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982854.1
COORDINATES: similar to AA sequence:RefSeq:WP_018210779.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_011982856.1
COORDINATES: similar to AA sequence:RefSeq:WP_015241453.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017265125.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003501024.1
COORDINATES: protein motif:HMM:NF016362.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015005714.1
COORDINATES: similar to AA sequence:RefSeq:WP_003500995.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982859.1
COORDINATES: similar to AA sequence:RefSeq:WP_017263540.1
plasmid mobilization relaxosome protein MobC
COORDINATES: similar to AA sequence:RefSeq:WP_003501000.1