Rhizobium gei strain ZFJT.2T plasmid p3, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Rhizobiaceae; Rhizobium/Agrobacterium group; Rhizobium.
Pararhizobium qamdoensis sp. nov., isolated from a alpine soil in Tibet
Submitted (05-MAR-2023) College of Bioscience and Biotechnology, Hunan Agricultural University, No. 1, Nongda Road, Furong District, Changsha City 410128, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP119411.1.\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 :: 29-JAN-2023\nAssembly Method :: unicycler v. v0.4.8\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 413.7x\nSequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/16/2023 16:08:13\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) :: 4,575\nCDSs (total) :: 4,512\nGenes (coding) :: 4,446\nCDSs (with protein) :: 4,446\nGenes (RNA) :: 63\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 4\nPseudo Genes (total) :: 66\nCDSs (without protein) :: 66\nPseudo Genes (ambiguous residues) :: 0 of 66\nPseudo Genes (frameshifted) :: 30 of 66\nPseudo Genes (incomplete) :: 53 of 66\nPseudo Genes (internal stop) :: 12 of 66\nPseudo Genes (multiple problems) :: 25 of 66\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_009491421.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014471.2
COORDINATES: similar to AA sequence:RefSeq:WP_011969618.1
COORDINATES: similar to AA sequence:RefSeq:WP_017268255.1
COORDINATES: similar to AA sequence:RefSeq:WP_012563221.1
COORDINATES: similar to AA sequence:RefSeq:WP_012563220.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007604635.1
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: similar to AA sequence:RefSeq:WP_004675975.1
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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF024934.2
COORDINATES: similar to AA sequence:RefSeq:WP_007771463.1
COORDINATES: protein motif:HMM:TIGR02588.1
COORDINATES: similar to AA sequence:RefSeq:WP_003553537.1
COORDINATES: similar to AA sequence:RefSeq:WP_006724029.1
COORDINATES: similar to AA sequence:RefSeq:WP_006724028.1
COORDINATES: similar to AA sequence:RefSeq:WP_003510290.1
COORDINATES: similar to AA sequence:RefSeq:WP_012760230.1
COORDINATES: similar to AA sequence:RefSeq:WP_018094421.1
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012758509.1
COORDINATES: similar to AA sequence:RefSeq:WP_012881217.1
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: protein motif:HMM:NF024676.2
COORDINATES: protein motif:HMM:NF021154.2
COORDINATES: protein motif:HMM:TIGR02566.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03637.1
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]
type I-F CRISPR-associated endonuclease Cas1f
COORDINATES: protein motif:HMM:NF037707.2
COORDINATES: similar to AA sequence:RefSeq:WP_012330561.1
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020702858.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
saccharopine dehydrogenase NADP-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008873515.1
COORDINATES: similar to AA sequence:RefSeq:WP_008049635.1
COORDINATES: similar to AA sequence:RefSeq:WP_013892335.1
COORDINATES: similar to AA sequence:RefSeq:WP_013945740.1
COORDINATES: similar to AA sequence:RefSeq:WP_008873519.1
COORDINATES: similar to AA sequence:RefSeq:WP_008873520.1
COORDINATES: similar to AA sequence:RefSeq:WP_018700382.1
COORDINATES: similar to AA sequence:RefSeq:WP_008145696.1
spermidine/putrescine ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: similar to AA sequence:RefSeq:WP_009571709.1
COORDINATES: similar to AA sequence:RefSeq:WP_012555808.1
COORDINATES: similar to AA sequence:RefSeq:WP_012553005.1
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_007607759.1
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: similar to AA sequence:RefSeq:WP_006727980.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017992642.1
COORDINATES: similar to AA sequence:RefSeq:WP_012759222.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_003551417.1
autoinducer binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003526080.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003526084.1
COORDINATES: similar to AA sequence:RefSeq:WP_003526086.1
COORDINATES: similar to AA sequence:RefSeq:WP_006159357.1
COORDINATES: similar to AA sequence:RefSeq:WP_003526077.1
COORDINATES: similar to AA sequence:RefSeq:WP_006015924.1
COORDINATES: similar to AA sequence:RefSeq:WP_011970612.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_007818559.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma factor-like helix-turn-helix DNA-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_012382957.1
COORDINATES: similar to AA sequence:RefSeq:WP_004124230.1
COORDINATES: similar to AA sequence:RefSeq:WP_007634950.1
COORDINATES: similar to AA sequence:RefSeq:WP_014762024.1
COORDINATES: similar to AA sequence:RefSeq:WP_018326647.1
COORDINATES: similar to AA sequence:RefSeq:WP_016736929.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_018446106.1
COORDINATES: similar to AA sequence:RefSeq:WP_018326650.1
COORDINATES: similar to AA sequence:RefSeq:WP_003511493.1
polyamine ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_018097220.1
COORDINATES: similar to AA sequence:RefSeq:WP_013845765.1
COORDINATES: similar to AA sequence:RefSeq:WP_018326654.1
COORDINATES: similar to AA sequence:RefSeq:WP_011087945.1
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.
COORDINATES: similar to AA sequence:RefSeq:WP_018859543.1
COORDINATES: similar to AA sequence:RefSeq:WP_009490148.1
COORDINATES: similar to AA sequence:RefSeq:WP_007674722.1
COORDINATES: similar to AA sequence:RefSeq:WP_003080098.1
COORDINATES: similar to AA sequence:RefSeq:WP_011751231.1
COORDINATES: similar to AA sequence:RefSeq:WP_012043425.1
COORDINATES: similar to AA sequence:RefSeq:WP_009490158.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018640792.1
COORDINATES: similar to AA sequence:RefSeq:WP_013529535.1
COORDINATES: protein motif:HMM:NF017262.2
COORDINATES: similar to AA sequence:RefSeq:WP_009049089.1
COORDINATES: similar to AA sequence:RefSeq:WP_009490134.1
COORDINATES: similar to AA sequence:RefSeq:WP_009318033.1
COORDINATES: similar to AA sequence:RefSeq:WP_019062658.1
COORDINATES: similar to AA sequence:RefSeq:WP_018317167.1
COORDINATES: similar to AA sequence:RefSeq:WP_009395425.1
COORDINATES: similar to AA sequence:RefSeq:WP_006935312.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008834688.1
COORDINATES: similar to AA sequence:RefSeq:WP_010975033.1
COORDINATES: similar to AA sequence:RefSeq:WP_010975034.1
COORDINATES: similar to AA sequence:RefSeq:WP_007764200.1
COORDINATES: similar to AA sequence:RefSeq:WP_003532175.1
COORDINATES: similar to AA sequence:RefSeq:WP_010967757.1
COORDINATES: similar to AA sequence:RefSeq:WP_017263430.1
COORDINATES: similar to AA sequence:RefSeq:WP_017268396.1
COORDINATES: similar to AA sequence:RefSeq:WP_003527028.1
COORDINATES: similar to AA sequence:RefSeq:WP_003532187.1
COORDINATES: similar to AA sequence:RefSeq:WP_006699177.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_018483794.1
type II toxin-antitoxin system RelB/DinJ family antitoxin