Azospirillum oryzae strain KACC 14407 plasmid unnamed7, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Azospirillaceae; Azospirillum.
Complete genome of Azosprillum oryzae KACC14407
Submitted (08-JUN-2020) College of Agriculture and Life Sciences, Kyungpook National University, Daehak-ro, Daegu 41566, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP054622.1.\nBacteria and source DNA available from Shin's Lab.\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 :: 08-JUN-2020\nAssembly Method :: HGAP v. 4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 149.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 05:27:22\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) :: 6,126\nCDSs (total) :: 6,022\nGenes (coding) :: 5,944\nCDSs (with protein) :: 5,944\nGenes (RNA) :: 104\nrRNAs :: 7, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 8, 8 (5S, 16S, 23S)\ntRNAs :: 77\nncRNAs :: 4\nPseudo Genes (total) :: 78\nCDSs (without protein) :: 78\nPseudo Genes (ambiguous residues) :: 0 of 78\nPseudo Genes (frameshifted) :: 18 of 78\nPseudo Genes (incomplete) :: 62 of 78\nPseudo Genes (internal stop) :: 10 of 78\nPseudo Genes (multiple problems) :: 12 of 78\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_019896648.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF023036.2
COORDINATES: similar to AA sequence:RefSeq:WP_014190048.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_014238971.1
GO:0016758 - hexosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008840616.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
colanic acid biosynthesis glycosyltransferase WcaL
COORDINATES: similar to AA sequence:RefSeq:WP_012978609.1
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_003089110.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007918069.1
COORDINATES: similar to AA sequence:RefSeq:WP_012973759.1
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_012978496.1
GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008348840.1
GO:0030554 - adenyl nucleotide binding [Evidence IEA]; GO:0018506 - maleylacetate reductase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008348841.1
COORDINATES: similar to AA sequence:RefSeq:WP_018903592.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004576115.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008073799.1
sugar ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_016499236.1
GO:0016491 - oxidoreductase activity [Evidence IEA]; GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008064894.1
GO:0050112 - inositol 2-dehydrogenase activity [Evidence IEA]
GO:0019310 - inositol catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008073794.1
GO:0016853 - isomerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008348853.1
COORDINATES: similar to AA sequence:RefSeq:WP_011983064.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR04416.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: similar to AA sequence:RefSeq:WP_014242659.1
COORDINATES: similar to AA sequence:RefSeq:WP_006159838.1
GO:0001216 - DNA-binding transcription activator activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012245.2
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020648693.1
GO:0008410 - CoA-transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016744300.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831923.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
GO:0019619 - 3,4-dihydroxybenzoate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009489568.1
COORDINATES: similar to AA sequence:RefSeq:WP_012631079.1
internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012870.2
Mu transposase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF017437.2
COORDINATES: protein motif:HMM:NF018259.2
COORDINATES: similar to AA sequence:RefSeq:WP_009503864.1
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: protein motif:HMM:NF014567.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF024858.2
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014189972.1
COORDINATES: similar to AA sequence:RefSeq:WP_011749831.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: protein motif:HMM:NF022077.2
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF021897.2
COORDINATES: protein motif:HMM:NF025137.2
COORDINATES: similar to AA sequence:RefSeq:WP_002729285.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF019151.2
COORDINATES: protein motif:HMM:NF016724.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006556910.1
COORDINATES: protein motif:HMM:NF014273.2
COORDINATES: similar to AA sequence:RefSeq:WP_012116561.1
COORDINATES: similar to AA sequence:RefSeq:WP_015933889.1
COORDINATES: protein motif:HMM:NF017832.2
COORDINATES: protein motif:HMM:NF025107.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF013235.2
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF041494.1
COORDINATES: similar to AA sequence:RefSeq:WP_011899407.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0015074 - DNA integration [Evidence IEA]
Members of this protein family are the putative conjugative coupling factor, TraD, as the term is used for the SXT and TOL plasmid systems; Derived by automated computational analysis using gene prediction method: Protein Homology.
conjugative transfer system coupling protein TraD
COORDINATES: protein motif:HMM:NF025706.2
COORDINATES: similar to AA sequence:RefSeq:WP_012976703.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976702.1
IS21-like element ISAzs30 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_011493046.1
COORDINATES: similar to AA sequence:RefSeq:WP_007192792.1
type IV conjugative transfer system protein TraL
COORDINATES: protein motif:HMM:NF017152.2
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_011899400.1
COORDINATES: protein motif:HMM:TIGR02747.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_017085227.1
TraA family conjugative transfer protein
COORDINATES: protein motif:HMM:NF040177.1
COORDINATES: protein motif:HMM:NF024498.2
COORDINATES: similar to AA sequence:RefSeq:WP_007039886.1
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: protein motif:HMM:NF021209.2
TrbC family F-type conjugative pilus assembly protein
COORDINATES: similar to AA sequence:RefSeq:WP_007039882.1
COORDINATES: protein motif:HMM:NF011458.0
conjugal transfer mating pair stabilization protein TraN
COORDINATES: protein motif:HMM:TIGR00621.2
COORDINATES: similar to AA sequence:RefSeq:WP_020503555.1
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03033.1
COORDINATES: similar to AA sequence:RefSeq:WP_012979593.1
CbbQ/NirQ/NorQ C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF022792.2
COORDINATES: protein motif:HMM:NF017973.2
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: protein motif:HMM:NF013594.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024853.2
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02740.1
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF017094.2
GO:0044780 - bacterial-type flagellum assembly [Evidence IEA]; GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]
flagellar transcriptional regulator FlhD
COORDINATES: protein motif:HMM:NF017124.2
GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]; GO:1902208 - regulation of bacterial-type flagellum assembly [Evidence IEA]
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_003593434.1
COORDINATES: protein motif:HMM:NF025304.2
COORDINATES: similar to AA sequence:RefSeq:WP_014198469.1
COORDINATES: similar to AA sequence:RefSeq:WP_018302939.1
COORDINATES: similar to AA sequence:RefSeq:WP_043766072.1
COORDINATES: similar to AA sequence:RefSeq:WP_001963822.1
GO:0000166 - nucleotide binding [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]
COORDINATES: protein motif:HMM:NF039622.1
COORDINATES: protein motif:HMM:NF022019.2
GO:0004518 - nuclease activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012321.2
COORDINATES: protein motif:HMM:NF025053.2
GO:0004722 - protein serine/threonine phosphatase activity [Evidence IEA]
PP2C family serine/threonine-protein phosphatase
COORDINATES: protein motif:HMM:NF012372.2
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013704.2
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: similar to AA sequence:RefSeq:WP_007675787.1
COORDINATES: similar to AA sequence:RefSeq:WP_013516321.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015495.1
COORDINATES: similar to AA sequence:RefSeq:WP_012606126.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF033517.1
COORDINATES: similar to AA sequence:RefSeq:WP_004210833.1
COORDINATES: protein motif:HMM:NF015038.2
COORDINATES: similar to AA sequence:RefSeq:WP_013635105.1
COORDINATES: similar to AA sequence:RefSeq:WP_013635106.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: similar to AA sequence:RefSeq:WP_011831520.1
COORDINATES: similar to AA sequence:RefSeq:WP_010517000.1
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019863481.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004630004.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014242676.1
COORDINATES: similar to AA sequence:RefSeq:WP_014242675.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976801.1
COORDINATES: protein motif:HMM:NF025555.2
COORDINATES: similar to AA sequence:RefSeq:WP_019463361.1
COORDINATES: protein motif:HMM:NF025241.2
COORDINATES: similar to AA sequence:RefSeq:WP_013039027.1
COORDINATES: similar to AA sequence:RefSeq:WP_012092589.1
COORDINATES: similar to AA sequence:RefSeq:WP_003167764.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008829239.1
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_008873507.1
COORDINATES: similar to AA sequence:RefSeq:WP_011265424.1
COORDINATES: similar to AA sequence:RefSeq:WP_006483868.1
GO:0033573 - high-affinity iron permease complex [Evidence IEA]; GO:0016020 - membrane [Evidence IEA]
GO:0005381 - iron ion transmembrane transporter activity [Evidence IEA]
GO:0034755 - iron ion transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003590811.1
COORDINATES: similar to AA sequence:RefSeq:WP_018749530.1
COORDINATES: similar to AA sequence:RefSeq:WP_018440031.1
COORDINATES: similar to AA sequence:RefSeq:WP_010114750.1
COORDINATES: protein motif:HMM:NF015378.2
COORDINATES: similar to AA sequence:RefSeq:WP_011522761.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF013718.2
COORDINATES: similar to AA sequence:RefSeq:WP_015599759.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0000156 - phosphorelay response regulator activity [Evidence IEA]; GO:0004673 - protein histidine kinase activity [Evidence IEA]
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_020665397.1
COORDINATES: similar to AA sequence:RefSeq:WP_012650495.1
COORDINATES: similar to AA sequence:RefSeq:WP_009469708.1
COORDINATES: similar to AA sequence:RefSeq:WP_005036008.1
COORDINATES: protein motif:HMM:NF015658.2
COORDINATES: similar to AA sequence:RefSeq:WP_007284526.1
COORDINATES: similar to AA sequence:RefSeq:WP_015342176.1
GO:0005215 - transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008067861.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006612757.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
CDF family Co(II)/Ni(II) efflux transporter DmeF
COORDINATES: similar to AA sequence:RefSeq:WP_015448136.1
COORDINATES: similar to AA sequence:RefSeq:WP_018898076.1
bifunctional DedA family/phosphatase PAP2 family protein
COORDINATES: protein motif:HMM:NF025433.2
LssY C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014242027.1
COORDINATES: similar to AA sequence:RefSeq:WP_009541290.1
COORDINATES: similar to AA sequence:RefSeq:WP_014531218.1
COORDINATES: similar to AA sequence:RefSeq:WP_015328537.1
COORDINATES: protein motif:HMM:NF019430.2
Spy/CpxP family protein refolding chaperone
COORDINATES: similar to AA sequence:RefSeq:WP_015212114.1
COORDINATES: similar to AA sequence:RefSeq:WP_011800661.1
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008946237.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012521615.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012318.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF017119.2
COORDINATES: similar to AA sequence:RefSeq:WP_008946280.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0005375 - copper ion transmembrane transporter activity [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
copper resistance system multicopper oxidase
COORDINATES: similar to AA sequence:RefSeq:WP_004578671.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
plastocyanin/azurin family copper-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_020665363.1
COORDINATES: similar to AA sequence:RefSeq:WP_008494163.1
COORDINATES: protein motif:HMM:NF014385.2
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019898485.1
efflux RND transporter periplasmic adaptor subunit