Arthrobacter dokdonellae isolate rhizosphere plasmid pDCT5, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Micrococcales; Micrococcaceae; Arthrobacter.
Arthrobacter dokdonellae sp. nov., isolated from a plant of the genus Campanula
Submitted (29-MAY-2018) Biology, Jeju National University, 102 Jejudaehak-ro, Jeju 63243, Korea, Republic of
REFSEQ INFORMATION: The reference sequence is identical to\nCP029643.1.\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 Method :: HGAP v. 3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 200x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 09:07:29\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) :: 4,044\nCDSs (total) :: 3,976\nGenes (coding) :: 3,902\nCDSs (with protein) :: 3,902\nGenes (RNA) :: 68\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 74\nCDSs (without protein) :: 74\nPseudo Genes (ambiguous residues) :: 0 of 74\nPseudo Genes (frameshifted) :: 32 of 74\nPseudo Genes (incomplete) :: 56 of 74\nPseudo Genes (internal stop) :: 8 of 74\nPseudo Genes (multiple problems) :: 17 of 74\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF012885.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012312.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013753.2
COORDINATES: protein motif:HMM:NF024932.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF026041.2
COORDINATES: similar to AA sequence:RefSeq:WP_003900767.1
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_009474225.1
COORDINATES: similar to AA sequence:RefSeq:WP_017489409.1
GO:0046912 - acyltransferase activity, acyl groups converted into alkyl on transfer [Evidence IEA]
bifunctional 2-methylcitrate synthase/citrate synthase
COORDINATES: similar to AA sequence:RefSeq:WP_014921336.1
GO:0046421 - methylisocitrate lyase activity [Evidence IEA]
GO:0019629 - propionate catabolic process, 2-methylcitrate cycle [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011691385.1
COORDINATES: similar to AA sequence:RefSeq:WP_012245594.1
COORDINATES: similar to AA sequence:RefSeq:WP_003075130.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_014920603.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007924593.1
dihydrolipoamide acetyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006947744.1
Lrp/AsnC family transcriptional regulator
COORDINATES: protein motif:HMM:NF022188.2
COORDINATES: similar to AA sequence:RefSeq:WP_020419338.1
COORDINATES: similar to AA sequence:RefSeq:WP_013672892.1
GO:0003862 - 3-isopropylmalate dehydrogenase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0051287 - NAD binding [Evidence IEA]
GO:0009098 - leucine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020669021.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020632721.1
COORDINATES: similar to AA sequence:RefSeq:WP_014173207.1
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020496177.1
GO:0004592 - pantoate-beta-alanine ligase activity [Evidence IEA]
GO:0015940 - pantothenate biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018775063.1
GO:0008935 - 1,4-dihydroxy-2-naphthoyl-CoA synthase activity [Evidence IEA]
GO:0009234 - menaquinone biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011691670.1
GO:0008746 - NAD(P)+ transhydrogenase activity [Evidence IEA]
GO:1902600 - proton transmembrane transport [Evidence IEA]
Re/Si-specific NAD(P)(+) transhydrogenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_003806015.1
GO:0008750 - NAD(P)+ transhydrogenase (AB-specific) activity [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]
Re/Si-specific NAD(P)(+) transhydrogenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_015303617.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558015.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623490.1
COORDINATES: protein motif:HMM:NF025200.2
COORDINATES: similar to AA sequence:RefSeq:WP_014923412.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931161.1
COORDINATES: similar to AA sequence:RefSeq:WP_014923458.1
COORDINATES: similar to AA sequence:RefSeq:WP_014923459.1
COORDINATES: similar to AA sequence:RefSeq:WP_012865288.1
COORDINATES: similar to AA sequence:RefSeq:WP_015938223.1
lipopolysaccharide assembly protein LapA domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018770384.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018189271.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_018780091.1
COORDINATES: similar to AA sequence:RefSeq:WP_013602626.1
amino acid ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011691827.1
COORDINATES: similar to AA sequence:RefSeq:WP_018775510.1
COORDINATES: similar to AA sequence:RefSeq:WP_010080128.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009309783.1
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF014581.2
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005053976.1
COORDINATES: protein motif:HMM:NF024212.2
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: similar to AA sequence:RefSeq:WP_011689803.1
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018776602.1
COORDINATES: similar to AA sequence:RefSeq:WP_011689802.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124600.1
GO:0015074 - DNA integration [Evidence IEA]
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_019157855.1
COORDINATES: protein motif:HMM:NF018259.2
COORDINATES: similar to AA sequence:RefSeq:WP_005268114.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF037437.2
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: similar to AA sequence:RefSeq:WP_007298482.1
COORDINATES: similar to AA sequence:RefSeq:WP_013132652.1
COORDINATES: similar to AA sequence:RefSeq:WP_018563759.1
COORDINATES: similar to AA sequence:RefSeq:WP_017969209.1
COORDINATES: similar to AA sequence:RefSeq:WP_015749546.1
COORDINATES: similar to AA sequence:RefSeq:WP_015750009.1
COORDINATES: similar to AA sequence:RefSeq:WP_005268113.1
COORDINATES: protein motif:HMM:NF018009.2
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:NF036995.2
DUF1016 N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF022169.2
COORDINATES: similar to AA sequence:RefSeq:WP_011689560.1
COORDINATES: similar to AA sequence:RefSeq:WP_005271723.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_012630825.1
GO:0016853 - isomerase activity [Evidence IEA]
GO:0006725 - cellular aromatic compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019971028.1
COORDINATES: similar to AA sequence:RefSeq:WP_019971029.1
COORDINATES: similar to AA sequence:RefSeq:WP_019971030.1
COORDINATES: similar to AA sequence:RefSeq:WP_005476170.1
COORDINATES: similar to AA sequence:RefSeq:WP_009380163.1
COORDINATES: similar to AA sequence:RefSeq:WP_012630819.1
COORDINATES: similar to AA sequence:RefSeq:WP_005271685.1
COORDINATES: protein motif:HMM:NF012514.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013821.2
COORDINATES: similar to AA sequence:RefSeq:WP_012630817.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_012750854.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623579.1
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_011693256.1
COORDINATES: similar to AA sequence:RefSeq:WP_003802827.1
COORDINATES: similar to AA sequence:RefSeq:WP_019873523.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]
FAD-linked oxidase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011209035.1
GO:0004474 - malate synthase activity [Evidence IEA]
GO:0006097 - glyoxylate cycle [Evidence IEA]
COORDINATES: protein motif:HMM:NF015862.2
COORDINATES: similar to AA sequence:RefSeq:WP_011777192.1
GO:0004068 - aspartate 1-decarboxylase activity [Evidence IEA]
GO:0006523 - alanine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003798572.1
COORDINATES: similar to AA sequence:RefSeq:WP_019484307.1
COORDINATES: similar to AA sequence:RefSeq:WP_014743169.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
alpha-ketoacid dehydrogenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_016188044.1
thiamine pyrophosphate-dependent dehydrogenase E1 component subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_011067627.1
CaiB/BaiF CoA-transferase family protein
COORDINATES: protein motif:HMM:NF027439.2
enoyl-CoA hydratase/isomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020423015.1
COORDINATES: protein motif:HMM:NF004283.0
COORDINATES: similar to AA sequence:RefSeq:WP_012690089.1
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_020458361.1
COORDINATES: protein motif:HMM:NF015366.2
tripartite tricarboxylate transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF018979.2
tripartite tricarboxylate transporter TctB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009380114.1
tripartite tricarboxylate transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_006898359.1
COORDINATES: similar to AA sequence:RefSeq:WP_019070742.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011600104.1
COORDINATES: protein motif:HMM:NF033546.1
COORDINATES: protein motif:HMM:NF012711.2
COORDINATES: protein motif:HMM:NF020039.2
SMP-30/gluconolactonase/LRE family protein
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: similar to AA sequence:RefSeq:WP_006822416.1
COORDINATES: protein motif:HMM:NF014430.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF012656.2
COORDINATES: similar to AA sequence:RefSeq:WP_020133220.1
GO:0016746 - acyltransferase activity [Evidence IEA]