Mesorhizobium jarvisii strain ATCC 33669 plasmid pMJ700743a, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Hyphomicrobiales; Phyllobacteriaceae; Mesorhizobium.
Submitted (02-NOV-2018) Microbiology and Immunology, University of Otago, 720 Cumberland St, Dunedin, Otago 9054, New Zealand
REFSEQ INFORMATION: The reference sequence is identical to\nCP033508.1.\nBacteria and source DNA available from University of Otago,\nDepartment of Microbiology and Immunology, Lab 607.\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 :: 15-OCT-2018\nAssembly Method :: Flye v. 2.3.5; Unicycler v. 0.4.6; SPAdes\n v. 3.12\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 139x; 16x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/07/2022 15:55:17\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 7,128\nCDSs (total) :: 7,066\nGenes (coding) :: 6,889\nCDSs (with protein) :: 6,889\nGenes (RNA) :: 62\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 4\nPseudo Genes (total) :: 177\nCDSs (without protein) :: 177\nPseudo Genes (ambiguous residues) :: 0 of 177\nPseudo Genes (frameshifted) :: 100 of 177\nPseudo Genes (incomplete) :: 124 of 177\nPseudo Genes (internal stop) :: 24 of 177\nPseudo Genes (multiple problems) :: 62 of 177\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_006339593.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008878418.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916134.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863969.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863968.1
COORDINATES: similar to AA sequence:RefSeq:WP_008840504.1
COORDINATES: similar to AA sequence:RefSeq:WP_019856483.1
COORDINATES: similar to AA sequence:RefSeq:WP_013525335.1
COORDINATES: similar to AA sequence:RefSeq:WP_013525336.1
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_006015837.1
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: similar to AA sequence:RefSeq:WP_019863907.1
COORDINATES: similar to AA sequence:RefSeq:WP_008872099.1
COORDINATES: similar to AA sequence:RefSeq:WP_013531588.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316679.1
COORDINATES: protein motif:HMM:NF024822.2
COORDINATES: similar to AA sequence:RefSeq:WP_008834189.1
GlsB/YeaQ/YmgE family stress response membrane protein
COORDINATES: similar to AA sequence:RefSeq:WP_018690309.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_018239518.1
GO:0004672 - protein kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010916149.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863755.1
COORDINATES: similar to AA sequence:RefSeq:WP_019859953.1
COORDINATES: similar to AA sequence:RefSeq:WP_010914245.1
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: protein motif:HMM:NF013884.2
COORDINATES: similar to AA sequence:RefSeq:WP_019863748.1
COORDINATES: protein motif:HMM:NF017638.2
COORDINATES: similar to AA sequence:RefSeq:WP_010911442.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916232.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019863740.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863738.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863736.1
PLP-dependent cysteine synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019863735.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863732.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019863731.1
COORDINATES: similar to AA sequence:RefSeq:WP_013893981.1
COORDINATES: similar to AA sequence:RefSeq:WP_020392615.1
COORDINATES: similar to AA sequence:RefSeq:WP_005033896.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013893982.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916167.1
amino acid ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019863703.1
GO:0005887 - integral component of plasma membrane [Evidence IEA]
GO:0033286 - ATPase-coupled ectoine transmembrane transporter activity [Evidence IEA]; GO:0033288 - ATPase-coupled hydroxyectoine transmembrane transporter activity [Evidence IEA]
GO:0051470 - ectoine transport [Evidence IEA]; GO:0033308 - hydroxyectoine transport [Evidence IEA]
ectoine/hydroxyectoine ABC transporter permease subunit EhuD
COORDINATES: similar to AA sequence:RefSeq:WP_020629186.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916170.1
COORDINATES: similar to AA sequence:RefSeq:WP_018426318.1
COORDINATES: similar to AA sequence:RefSeq:WP_012110080.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_010916173.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863697.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_010395132.1
GO:0009292 - horizontal gene transfer [Evidence IEA]
putative entry exclusion protein TrbK-alt
COORDINATES: similar to AA sequence:RefSeq:WP_010395136.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_019404641.1
COORDINATES: similar to AA sequence:RefSeq:WP_013893995.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_013893996.1
COORDINATES: similar to AA sequence:RefSeq:WP_012112708.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863688.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863687.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863685.1
GO:0008853 - exodeoxyribonuclease III activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010910929.1
COORDINATES: similar to AA sequence:RefSeq:WP_013525102.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863681.1
COORDINATES: similar to AA sequence:RefSeq:WP_020629184.1
COORDINATES: similar to AA sequence:RefSeq:WP_013533227.1
COORDINATES: protein motif:HMM:NF016162.2
COORDINATES: similar to AA sequence:RefSeq:WP_007635327.1
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: similar to AA sequence:RefSeq:WP_015314974.1
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_010915377.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010915376.1
YMGG-like glycine zipper-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010915375.1
COORDINATES: similar to AA sequence:RefSeq:WP_020629180.1
COORDINATES: similar to AA sequence:RefSeq:WP_010915373.1
COORDINATES: protein motif:HMM:NF012264.2
ankyrin repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019863664.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863663.1
COORDINATES: similar to AA sequence:RefSeq:WP_013525243.1
COORDINATES: similar to AA sequence:RefSeq:WP_019860883.1
COORDINATES: similar to AA sequence:RefSeq:WP_010915370.1
COORDINATES: similar to AA sequence:RefSeq:WP_010915369.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863656.1
COORDINATES: similar to AA sequence:RefSeq:WP_020629179.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863650.1
COORDINATES: similar to AA sequence:RefSeq:WP_019860813.1
methyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010915709.1
COORDINATES: similar to AA sequence:RefSeq:WP_010915309.1
COORDINATES: protein motif:HMM:NF020931.2
COORDINATES: similar to AA sequence:RefSeq:WP_010916055.1
GO:0031362 - anchored component of external side of plasma membrane [Evidence IEA]; GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0033286 - ATPase-coupled ectoine transmembrane transporter activity [Evidence IEA]; GO:0033288 - ATPase-coupled hydroxyectoine transmembrane transporter activity [Evidence IEA]; GO:0033294 - ectoine binding [Evidence IEA]; GO:0033295 - hydroxyectoine binding [Evidence IEA]
ectoine/hydroxyectoine ABC transporter substrate-binding protein EhuB
COORDINATES: similar to AA sequence:RefSeq:WP_007010361.1
type IV secretion VirD4 coupling protein family; frameshifted; internal stop; 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_013893943.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019863644.1
type II toxin-antitoxin system HipA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013893941.1
COORDINATES: similar to AA sequence:RefSeq:WP_018429599.1
COORDINATES: similar to AA sequence:RefSeq:WP_012561376.1
VirD2 family relaxase/mobilization nuclease
COORDINATES: similar to AA sequence:RefSeq:WP_013893938.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013893937.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863634.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916062.1
COORDINATES: similar to AA sequence:RefSeq:WP_013893934.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916064.1
COORDINATES: similar to AA sequence:RefSeq:WP_010336143.1
COORDINATES: similar to AA sequence:RefSeq:WP_011872576.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010970490.1
COORDINATES: similar to AA sequence:RefSeq:WP_010914688.1
COORDINATES: similar to AA sequence:RefSeq:WP_010100117.1
COORDINATES: similar to AA sequence:RefSeq:WP_017991317.1
COORDINATES: similar to AA sequence:RefSeq:WP_010970489.1
COORDINATES: similar to AA sequence:RefSeq:WP_015007989.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010970487.1
COORDINATES: similar to AA sequence:RefSeq:WP_010970486.1
COORDINATES: similar to AA sequence:RefSeq:WP_003563660.1
COORDINATES: similar to AA sequence:RefSeq:WP_004919287.1
COORDINATES: similar to AA sequence:RefSeq:WP_013894282.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_018184504.1
substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018244616.1
COORDINATES: protein motif:HMM:NF012692.2
COORDINATES: similar to AA sequence:RefSeq:WP_002633439.1
COORDINATES: similar to AA sequence:RefSeq:WP_008872506.1
alcohol dehydrogenase catalytic domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008872505.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
GO:0015220 - choline transmembrane transporter activity [Evidence IEA]
GO:0015871 - choline transport [Evidence IEA]
choline ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF001978.0
COORDINATES: similar to AA sequence:RefSeq:WP_012234046.1
COORDINATES: similar to AA sequence:RefSeq:WP_010660164.1
COORDINATES: similar to AA sequence:RefSeq:WP_018963964.1
COORDINATES: similar to AA sequence:RefSeq:WP_007693535.1
COORDINATES: similar to AA sequence:RefSeq:WP_020706184.1
COORDINATES: similar to AA sequence:RefSeq:WP_012337044.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916068.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916069.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863605.1
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: similar to AA sequence:RefSeq:WP_007674248.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916122.1
COORDINATES: protein motif:HMM:NF014626.2
COORDINATES: similar to AA sequence:RefSeq:WP_010915329.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316654.1
COORDINATES: similar to AA sequence:RefSeq:WP_010913469.1
sugar ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_010913468.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010913467.1
COORDINATES: similar to AA sequence:RefSeq:WP_010913466.1
COORDINATES: similar to AA sequence:RefSeq:WP_017274797.1
COORDINATES: similar to AA sequence:RefSeq:WP_010913463.1
COORDINATES: similar to AA sequence:RefSeq:WP_007507714.1
COORDINATES: similar to AA sequence:RefSeq:WP_003857431.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863592.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316672.1
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015316671.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316670.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_016735745.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863586.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316667.1
COORDINATES: similar to AA sequence:RefSeq:WP_019863584.1
COORDINATES: protein motif:HMM:NF021581.2
COORDINATES: similar to AA sequence:RefSeq:WP_013039029.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916088.1
GO:0003684 - damaged DNA binding [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008830087.1
COORDINATES: similar to AA sequence:RefSeq:WP_011082895.1
COORDINATES: similar to AA sequence:RefSeq:WP_011091007.1
COORDINATES: similar to AA sequence:RefSeq:WP_006022618.1
bifunctional class I SAM-dependent methyltransferase/DEAD/DEAH box helicase
COORDINATES: similar to AA sequence:RefSeq:WP_006022620.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_010916094.1
COORDINATES: similar to AA sequence:RefSeq:WP_006203652.1
COORDINATES: similar to AA sequence:RefSeq:WP_013525315.1
COORDINATES: similar to AA sequence:RefSeq:WP_019864069.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916204.1
COORDINATES: protein motif:HMM:NF012301.2
COORDINATES: similar to AA sequence:RefSeq:WP_010915314.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916207.1
COORDINATES: similar to AA sequence:RefSeq:WP_019859955.1
COORDINATES: similar to AA sequence:RefSeq:WP_013894428.1
COORDINATES: similar to AA sequence:RefSeq:WP_007533260.1
GO:0055085 - transmembrane transport [Evidence IEA]
low affinity iron permease family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003546221.1
COORDINATES: similar to AA sequence:RefSeq:WP_020048964.1
COORDINATES: similar to AA sequence:RefSeq:WP_019864054.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0005992 - trehalose biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007006481.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316446.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013894156.1
COORDINATES: similar to AA sequence:RefSeq:WP_019864045.1
COORDINATES: similar to AA sequence:RefSeq:WP_013525026.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0005515 - protein binding [Evidence IEA]; GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0006508 - proteolysis [Evidence IEA]; GO:0006950 - response to stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019864043.1
COORDINATES: similar to AA sequence:RefSeq:WP_019864041.1
COORDINATES: similar to AA sequence:RefSeq:WP_013531386.1
COORDINATES: similar to AA sequence:RefSeq:WP_006337480.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916067.1
COORDINATES: protein motif:HMM:NF039409.1
COORDINATES: similar to AA sequence:RefSeq:WP_020629218.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010910827.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013532438.1
COORDINATES: protein motif:HMM:NF024865.2
COORDINATES: similar to AA sequence:RefSeq:WP_003251456.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916095.1
COORDINATES: similar to AA sequence:RefSeq:WP_019864026.1
COORDINATES: similar to AA sequence:RefSeq:WP_019864025.1
COORDINATES: similar to AA sequence:RefSeq:WP_010915349.1
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_013525246.1
COORDINATES: protein motif:HMM:NF012296.2
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: protein motif:HMM:NF015587.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611175.1
COORDINATES: similar to AA sequence:RefSeq:WP_015920427.1
COORDINATES: similar to AA sequence:RefSeq:WP_010915334.1
COORDINATES: protein motif:HMM:NF015510.2
outer membrane lipoprotein carrier protein LolA
outer-membrane lipoprotein carrier protein LolA
COORDINATES: similar to AA sequence:RefSeq:WP_019862099.1
glycine zipper domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010910880.1
COORDINATES: similar to AA sequence:RefSeq:WP_020629215.1
GO:0016021 - integral component of membrane [Evidence IEA]
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010910813.1
COORDINATES: similar to AA sequence:RefSeq:WP_019860061.1
COORDINATES: similar to AA sequence:RefSeq:WP_013894162.1
COORDINATES: similar to AA sequence:RefSeq:WP_012483515.1
COORDINATES: similar to AA sequence:RefSeq:WP_013897150.1
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_013897151.1
COORDINATES: similar to AA sequence:RefSeq:WP_010910444.1
COORDINATES: similar to AA sequence:RefSeq:WP_015951513.1
COORDINATES: similar to AA sequence:RefSeq:WP_015314254.1
COORDINATES: protein motif:HMM:NF021438.2
COORDINATES: protein motif:HMM:NF013071.2
COORDINATES: protein motif:HMM:NF018770.2
COORDINATES: similar to AA sequence:RefSeq:WP_015316697.1
COORDINATES: similar to AA sequence:RefSeq:WP_006201336.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916183.1
COORDINATES: similar to AA sequence:RefSeq:WP_020629212.1
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-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_019863975.1
COORDINATES: similar to AA sequence:RefSeq:WP_010916129.1
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_010916131.1