Pseudarthrobacter chlorophenolicus A6 plasmid pACHL01, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Micrococcales; Micrococcaceae; Pseudarthrobacter.
Complete sequence of plasmid1 of Arthrobacter chlorophenolicus A6
Submitted (06-JAN-2009) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001342.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4024171\nSource DNA and bacteria available from Janet Jansson\n(janet.jansson@microbe.slu.se)\nSource DNA available from Janet Jansson\n(janet.jansson@microbe.slu.se)\nContacts: Janet Jansson (janet.jansson@microbe.slu.se)\n David Bruce (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-PGF\nFinished microbial genomes have been curated to close all gaps with\ngreater than 98% coverage of at least two independent clones. Each\nbase pair has a minimum q (quality) value of 30 and the total error\nrate is less than one per 50000.\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/23/2023 01:56:15\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) :: 4,722\nCDSs (total) :: 4,614\nGenes (coding) :: 4,568\nCDSs (with protein) :: 4,568\nGenes (RNA) :: 108\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 89\nncRNAs :: 4\nPseudo Genes (total) :: 46\nCDSs (without protein) :: 46\nPseudo Genes (ambiguous residues) :: 0 of 46\nPseudo Genes (frameshifted) :: 23 of 46\nPseudo Genes (incomplete) :: 25 of 46\nPseudo Genes (internal stop) :: 2 of 46\nPseudo Genes (multiple problems) :: 4 of 46\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Pseudarthrobacter chlorophenolicus
COORDINATES: similar to AA sequence:RefSeq:WP_020017236.1
GO:0004799 - thymidylate synthase activity [Evidence IEA]
GO:0006231 - dTMP biosynthetic process [Evidence IEA]
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: similar to AA sequence:RefSeq:WP_017199895.1
COORDINATES: similar to AA sequence:RefSeq:WP_019483705.1
GO:0004146 - dihydrofolate reductase activity [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623417.1
COORDINATES: similar to AA sequence:RefSeq:WP_013348935.1
COORDINATES: similar to AA sequence:RefSeq:WP_004135215.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0015450 - protein-transporting ATPase activity [Evidence IEA]
GO:0043952 - protein transport by the Sec complex [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005267752.1
COORDINATES: protein motif:HMM:NF012630.2
GO:0031012 - extracellular matrix [Evidence IEA]
GO:0004222 - metalloendopeptidase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012622973.1
COORDINATES: protein motif:HMM:NF012514.2
GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623166.1
COORDINATES: protein motif:HMM:NF018028.2
COORDINATES: similar to AA sequence:RefSeq:WP_003799926.1
COORDINATES: similar to AA sequence:RefSeq:WP_013770941.1
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_018186223.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00023
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_007269300.1
GO:0004791 - thioredoxin-disulfide reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020018328.1
COORDINATES: protein motif:HMM:NF017148.2
COORDINATES: similar to AA sequence:RefSeq:WP_005048836.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: protein motif:HMM:NF012304.2
COORDINATES: protein motif:HMM:NF036760.2
COORDINATES: similar to AA sequence:RefSeq:WP_020664267.1
COORDINATES: similar to AA sequence:RefSeq:WP_017834552.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017834553.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623169.1
COORDINATES: similar to AA sequence:RefSeq:WP_012622975.1
COORDINATES: similar to AA sequence:RefSeq:WP_019309671.1
COORDINATES: similar to AA sequence:RefSeq:WP_010142958.1
COORDINATES: similar to AA sequence:RefSeq:WP_013883360.1
COORDINATES: similar to AA sequence:RefSeq:WP_018761104.1
GO:0004170 - dUTP diphosphatase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
GO:0006226 - dUMP biosynthetic process [Evidence IEA]; GO:0046081 - dUTP catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009358739.1
COORDINATES: protein motif:HMM:NF013871.2
COORDINATES: similar to AA sequence:RefSeq:WP_012038298.1
GO:0003676 - nucleic acid binding [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]; GO:0001072 - transcription antitermination factor activity, RNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003802198.1
COORDINATES: protein motif:HMM:NF016341.2
tRNA(His) guanylyltransferase Thg1 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009358572.1
COORDINATES: similar to AA sequence:RefSeq:WP_009358573.1
COORDINATES: protein motif:HMM:TIGR02228.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019482090.1
COORDINATES: protein motif:HMM:NF024110.2
COORDINATES: protein motif:HMM:NF019913.2
COORDINATES: similar to AA sequence:RefSeq:WP_012622933.1
COORDINATES: similar to AA sequence:RefSeq:WP_005270124.1
COORDINATES: protein motif:HMM:NF013704.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
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: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018769720.1
COORDINATES: protein motif:HMM:NF016370.2
COORDINATES: similar to AA sequence:RefSeq:WP_003800482.1
COORDINATES: protein motif:HMM:NF015422.2
GO:0003676 - nucleic acid binding [Evidence IEA]
helicase associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018774224.1
COORDINATES: protein motif:HMM:TIGR03491.1
TM0106 family RecB-like putative nuclease
COORDINATES: similar to AA sequence:RefSeq:WP_018771288.1
GO:0016301 - kinase activity [Evidence IEA]
type II toxin-antitoxin system death-on-curing family toxin
COORDINATES: protein motif:HMM:NF024671.2
COORDINATES: protein motif:HMM:NF013618.2
LysM peptidoglycan-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018773424.1
COORDINATES: protein motif:HMM:NF017007.2
COORDINATES: similar to AA sequence:RefSeq:WP_005270350.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623165.1
COORDINATES: protein motif:HMM:NF015338.2
endonuclease/exonuclease/phosphatase family protein
COORDINATES: protein motif:HMM:NF013122.2
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011928072.1
COORDINATES: protein motif:HMM:NF024359.2
COORDINATES: similar to AA sequence:RefSeq:WP_007272804.1
COORDINATES: protein motif:HMM:NF012422.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
LuxR C-terminal-related transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018760059.1
COORDINATES: protein motif:HMM:NF022077.2
COORDINATES: similar to AA sequence:RefSeq:WP_011773677.1
COORDINATES: similar to AA sequence:RefSeq:WP_009358568.1
COORDINATES: similar to AA sequence:RefSeq:WP_005267176.1
COORDINATES: protein motif:HMM:NF024601.2
COORDINATES: similar to AA sequence:RefSeq:WP_011690854.1
COORDINATES: similar to AA sequence:RefSeq:WP_005885981.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF019976.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
nuclease-related domain-containing protein
COORDINATES: protein motif:HMM:NF019346.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013603179.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623041.1
COORDINATES: protein motif:HMM:NF012632.2
COORDINATES: similar to AA sequence:RefSeq:WP_018780249.1
GO:0004519 - endonuclease activity [Evidence IEA]
HNH endonuclease signature motif containing protein
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012694.2
type II secretion system F family protein
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: similar to AA sequence:RefSeq:WP_011776247.1
COORDINATES: protein motif:HMM:NF013632.2
GO:0009306 - protein secretion [Evidence IEA]
COORDINATES: protein motif:HMM:NF022554.2
COORDINATES: protein motif:HMM:NF016253.2
GO:0043683 - type IV pilus assembly [Evidence IEA]; GO:0043107 - type IV pilus-dependent motility [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623137.1
prepilin-type N-terminal cleavage/methylation domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012623136.1
S-layer homology domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018772849.1
COORDINATES: similar to AA sequence:RefSeq:WP_018761323.1
COORDINATES: similar to AA sequence:RefSeq:WP_019482024.1
GO:0008233 - peptidase activity [Evidence IEA]; GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
COORDINATES: protein motif:HMM:NF036700.2
COORDINATES: protein motif:HMM:NF012372.2
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018779737.1
COORDINATES: similar to AA sequence:RefSeq:WP_018771409.1
helix-turn-helix domain-containing protein
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007273091.1
COORDINATES: protein motif:HMM:NF012376.2
GO:0046872 - metal ion binding [Evidence IEA]; GO:0042578 - phosphoric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623171.1
COORDINATES: similar to AA sequence:RefSeq:WP_012622970.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623174.1
COORDINATES: similar to AA sequence:RefSeq:WP_012622972.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623170.1
COORDINATES: protein motif:HMM:NF021509.2
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012623179.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623177.1
COORDINATES: similar to AA sequence:RefSeq:WP_011689687.1
COORDINATES: similar to AA sequence:RefSeq:WP_012623184.1
COORDINATES: protein motif:HMM:NF018627.2
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_005266180.1
COORDINATES: similar to AA sequence:RefSeq:WP_011689611.1
COORDINATES: similar to AA sequence:RefSeq:WP_011689610.1
COORDINATES: protein motif:HMM:NF037735.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003798302.1
COORDINATES: similar to AA sequence:RefSeq:WP_005270120.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF014862.2
Clp protease N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007923792.1
GO:0008251 - tRNA-specific adenosine deaminase activity [Evidence IEA]
GO:0002100 - tRNA wobble adenosine to inosine editing [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013599592.1
COORDINATES: similar to AA sequence:RefSeq:WP_009359607.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020512056.1
COORDINATES: similar to AA sequence:RefSeq:WP_005270166.1
COORDINATES: similar to AA sequence:RefSeq:WP_013603100.1
COORDINATES: similar to AA sequence:RefSeq:WP_013599893.1
COORDINATES: protein motif:HMM:NF025602.2
COORDINATES: similar to AA sequence:RefSeq:WP_003957039.1
COORDINATES: similar to AA sequence:RefSeq:WP_011693684.1
COORDINATES: similar to AA sequence:RefSeq:WP_013599364.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012623492.1
COORDINATES: protein motif:HMM:NF003765.0
GO:0000175 - 3'-5'-exoribonuclease activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF025827.2
COORDINATES: protein motif:HMM:NF020968.2
COORDINATES: similar to AA sequence:RefSeq:WP_003296446.1
COORDINATES: protein motif:HMM:NF013964.2
COORDINATES: similar to AA sequence:RefSeq:WP_012623323.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003911 - DNA ligase (NAD+) activity [Evidence IEA]
GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018548053.1
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]; GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_015979659.1
COORDINATES: similar to AA sequence:RefSeq:WP_005266929.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009359126.1
COORDINATES: protein motif:HMM:NF014083.2
GO:0004045 - aminoacyl-tRNA hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025001.2
COORDINATES: protein motif:HMM:NF019884.2
COORDINATES: similar to AA sequence:RefSeq:WP_003798309.1
COORDINATES: protein motif:HMM:NF024117.2
COORDINATES: protein motif:HMM:NF024254.2
COORDINATES: protein motif:HMM:NF024703.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013772638.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: protein motif:HMM:NF025669.2
GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018772960.1
COORDINATES: protein motif:HMM:NF012403.2
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF022388.2
COORDINATES: protein motif:HMM:NF017102.2
GO:0004040 - amidase activity [Evidence IEA]; GO:0042834 - peptidoglycan binding [Evidence IEA]
GO:0004519 - endonuclease activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF012651.2
COORDINATES: protein motif:HMM:TIGR00594.1
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: protein motif:HMM:NF014826.2
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02937.1
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_015937817.1
COORDINATES: similar to AA sequence:RefSeq:WP_013415687.1
TadE/TadG family type IV pilus assembly protein
COORDINATES: protein motif:HMM:NF024792.2
pilus assembly protein TadG-related protein
COORDINATES: similar to AA sequence:RefSeq:WP_005269538.1
COORDINATES: similar to AA sequence:RefSeq:WP_018773693.1
COORDINATES: similar to AA sequence:RefSeq:WP_014375808.1
COORDINATES: similar to AA sequence:RefSeq:WP_005267769.1
COORDINATES: similar to AA sequence:RefSeq:WP_007633020.1
COORDINATES: similar to AA sequence:RefSeq:WP_018134251.1
GO:0009263 - deoxyribonucleotide biosynthetic process [Evidence IEA]
class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI
COORDINATES: similar to AA sequence:RefSeq:WP_018134252.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
class 1b ribonucleoside-diphosphate reductase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_019482488.1
GO:0005971 - ribonucleoside-diphosphate reductase complex [Evidence IEA]
GO:0030145 - manganese ion binding [Evidence IEA]; GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
GO:0009265 - 2'-deoxyribonucleotide biosynthetic process [Evidence IEA]
class 1b ribonucleoside-diphosphate reductase subunit beta
COORDINATES: protein motif:HMM:NF022151.2
COORDINATES: similar to AA sequence:RefSeq:WP_015936198.1
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011776355.1
COORDINATES: similar to AA sequence:RefSeq:WP_017523516.1
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009480120.1
GO:0008452 - RNA ligase activity [Evidence IEA]
GO:0006396 - RNA processing [Evidence IEA]
COORDINATES: protein motif:HMM:NF017874.2
COORDINATES: similar to AA sequence:RefSeq:WP_003803932.1
GO:0015385 - sodium:proton antiporter activity [Evidence IEA]
GO:1902600 - proton transmembrane transport [Evidence IEA]; GO:0006885 - regulation of pH [Evidence IEA]; GO:0006814 - sodium ion transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF015347.2
BspA family leucine-rich repeat surface protein