Kineococcus radiotolerans SRS30216 = ATCC BAA-149 plasmid pKRAD01, complete sequence.
Kineococcus radiotolerans SRS30216 = ATCC BAA-149
Bacteria; Actinomycetota; Actinomycetes; Kineosporiales; Kineosporiaceae; Kineococcus.
Complete sequence of plasmid pKRAD01 of Kineococcus radiotolerans SRS30216
Submitted (04-JUL-2007) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP000751.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 3436090\nSource DNA and bacteria available from Christopher E. Bagwell\n(christopher.bagwell@srnl.doe.gov)\nContacts: Christopher E. Bagwell (christopher.bagwell@srnl.doe.gov)\n Paul Richardson (microbes@cuba.jgi-psf.org)\nQuality assurance done by JGI-Stanford\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\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)\nAdditional Notes: Kineococcus radiotolerans SRS30216 has 3\nreplicons, a chromosome and two plasmids. The chromosome and the\nlargest plasmid, plasmid 1, both appear to be linear. We have\nperformed various pcr reactions in an attempt to circularize them.\nNone have succeeded.\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 :: 03/10/2023 02:00:10\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) :: 4,765\nCDSs (total) :: 4,701\nGenes (coding) :: 4,678\nCDSs (with protein) :: 4,678\nGenes (RNA) :: 64\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 3\nPseudo Genes (total) :: 23\nCDSs (without protein) :: 23\nPseudo Genes (ambiguous residues) :: 0 of 23\nPseudo Genes (frameshifted) :: 5 of 23\nPseudo Genes (incomplete) :: 19 of 23\nPseudo Genes (internal stop) :: 3 of 23\nPseudo Genes (multiple problems) :: 4 of 23\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Kineococcus radiotolerans
COORDINATES: protein motif:HMM:NF023202.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012088063.1
COORDINATES: similar to AA sequence:RefSeq:WP_012088062.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015491271.1
COORDINATES: protein motif:HMM:NF012298.2
BadM/Rrf2 family transcriptional regulator
COORDINATES: protein motif:HMM:NF019976.2
nuclease-related domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011981350.1
COORDINATES: similar to AA sequence:RefSeq:WP_012087627.1
GO:0016787 - hydrolase activity [Evidence IEA]
alpha/beta hydrolase fold domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009776756.1
COORDINATES: protein motif:HMM:NF019350.2
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]; GO:0046983 - protein dimerization activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011981274.1
manganese efflux pump MntP family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012889645.1
GO:0005384 - manganese ion transmembrane transporter activity [Evidence IEA]
GO:0030026 - cellular manganese ion homeostasis [Evidence IEA]
COORDINATES: protein motif:HMM:NF015859.2
COORDINATES: similar to AA sequence:RefSeq:WP_020142560.1
COORDINATES: similar to AA sequence:RefSeq:WP_012085025.1
bifunctional lysylphosphatidylglycerol flippase/synthetase MprF
COORDINATES: protein motif:HMM:TIGR02227.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018786559.1
bifunctional metallophosphatase/5'-nucleotidase
COORDINATES: similar to AA sequence:RefSeq:WP_007071744.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_013130707.1
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014375082.1
cation diffusion facilitator family transporter
COORDINATES: protein motif:HMM:NF016149.2
COORDINATES: similar to AA sequence:RefSeq:WP_012002007.1
flagellar basal body-associated FliL family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019686611.1
COORDINATES: similar to AA sequence:RefSeq:WP_010594979.1
COORDINATES: similar to AA sequence:RefSeq:WP_005207657.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: nucleotide motif:Rfam:14.4:RF00379
cyclic di-AMP (ydaO/yuaA leader) riboswitch senses the signaling molecule cyclic di-AMP; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_012086723.1
COORDINATES: protein motif:HMM:NF021445.2
COORDINATES: similar to AA sequence:RefSeq:WP_011981713.1
COORDINATES: protein motif:HMM:NF023418.2
DUF3488 and transglutaminase-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012085039.1
COORDINATES: similar to AA sequence:RefSeq:WP_011981485.1
GO:0016410 - N-acyltransferase activity [Evidence IEA]
GO:0042158 - lipoprotein biosynthetic process [Evidence IEA]; GO:0006497 - protein lipidation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019632324.1
GO:0017004 - cytochrome complex assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF020123.2
COORDINATES: similar to AA sequence:RefSeq:WP_012879724.1
COORDINATES: protein motif:HMM:NF025378.2
COORDINATES: protein motif:HMM:NF021214.2
GO:0042597 - periplasmic space [Evidence IEA]
GO:0005507 - copper ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015749986.1
COORDINATES: similar to AA sequence:RefSeq:WP_020572667.1
COORDINATES: similar to AA sequence:RefSeq:WP_009774505.1
COORDINATES: similar to AA sequence:RefSeq:WP_008720057.1
vitamin K epoxide reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012085038.1
GO:0020037 - heme binding [Evidence IEA]
c-type cytochrome biogenesis protein CcsB
COORDINATES: protein motif:HMM:NF015658.2
COORDINATES: similar to AA sequence:RefSeq:WP_013882296.1
COORDINATES: similar to AA sequence:RefSeq:WP_007491732.1
COORDINATES: similar to AA sequence:RefSeq:WP_017975736.1
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011981414.1
COORDINATES: protein motif:HMM:NF013884.2
COORDINATES: similar to AA sequence:RefSeq:WP_009326916.1
COORDINATES: similar to AA sequence:RefSeq:WP_018187744.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013769404.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005458909.1
COORDINATES: similar to AA sequence:RefSeq:WP_007820097.1
COORDINATES: similar to AA sequence:RefSeq:WP_013118732.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979476.1
COORDINATES: similar to AA sequence:RefSeq:WP_004805307.1
COORDINATES: similar to AA sequence:RefSeq:WP_017834424.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013646.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF021509.2
COORDINATES: similar to AA sequence:RefSeq:WP_011981446.1
COORDINATES: protein motif:HMM:NF013504.2
COORDINATES: similar to AA sequence:RefSeq:WP_017559356.1
COORDINATES: protein motif:HMM:NF024254.2
COORDINATES: protein motif:HMM:NF024056.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF020250.2
COORDINATES: protein motif:HMM:NF012652.2
type II secretion system F family protein
COORDINATES: protein motif:HMM:NF019428.2
TadE/TadG family type IV pilus assembly protein
COORDINATES: protein motif:HMM:NF024792.2
bacterial transcriptional activator domain-containing protein
COORDINATES: protein motif:HMM:NF013632.2
COORDINATES: protein motif:HMM:NF025107.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020610172.1
GO:0030604 - 1-deoxy-D-xylulose-5-phosphate reductoisomerase activity [Evidence IEA]
GO:0019288 - isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway [Evidence IEA]
1-deoxy-D-xylulose-5-phosphate reductoisomerase
COORDINATES: protein motif:HMM:NF012415.2
COORDINATES: similar to AA sequence:RefSeq:WP_017936250.1
ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF013122.2
COORDINATES: similar to AA sequence:RefSeq:WP_020732132.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979478.1
COORDINATES: similar to AA sequence:RefSeq:WP_007534705.1
COORDINATES: similar to AA sequence:RefSeq:WP_020476729.1
COORDINATES: similar to AA sequence:RefSeq:WP_014691325.1
COORDINATES: protein motif:HMM:NF024122.2
COORDINATES: similar to AA sequence:RefSeq:WP_012887582.1
COORDINATES: protein motif:HMM:NF036806.2
COORDINATES: protein motif:HMM:NF039460.1