Pelobacter propionicus DSM 2379 plasmid pPRO1, complete sequence.
Bacteria; Thermodesulfobacteriota; Desulfuromonadia; Desulfuromonadales; Desulfuromonadaceae; Pelobacter.
Complete sequence of plasmid pPRO1 of Pelobacter propionicus DSM 2379
Submitted (31-OCT-2006) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP000483.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 3436113\nSource DNA available from Derek Lovley (dlovley@bio.umass.edu)\nBacteria available from DSMZ: DSM 2379\nContacts: Derek Lovley (dlovley@bio.umass.edu)\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).\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 :: 12/28/2022 01:23:01\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) :: 3,927\nCDSs (total) :: 3,858\nGenes (coding) :: 3,833\nCDSs (with protein) :: 3,833\nGenes (RNA) :: 69\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 4\nPseudo Genes (total) :: 25\nCDSs (without protein) :: 25\nPseudo Genes (ambiguous residues) :: 0 of 25\nPseudo Genes (frameshifted) :: 0 of 25\nPseudo Genes (incomplete) :: 24 of 25\nPseudo Genes (internal stop) :: 1 of 25\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF024642.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR03735.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF014244.2
COORDINATES: similar to AA sequence:RefSeq:WP_004512197.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: protein motif:HMM:NF025069.2
COORDINATES: protein motif:HMM:NF019335.2
TonB-dependent receptor plug domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011939103.1
COORDINATES: similar to AA sequence:RefSeq:WP_012647650.1
COORDINATES: similar to AA sequence:RefSeq:WP_011938442.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012530605.1
COORDINATES: similar to AA sequence:RefSeq:WP_015837345.1
heavy metal-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011937024.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937025.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011937026.1
COORDINATES: similar to AA sequence:RefSeq:WP_015837346.1
COORDINATES: similar to AA sequence:RefSeq:WP_004511515.1
COORDINATES: similar to AA sequence:RefSeq:WP_004511506.1
COORDINATES: similar to AA sequence:RefSeq:WP_015838410.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937030.1
sigma-54 dependent transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012647642.1
COORDINATES: similar to AA sequence:RefSeq:WP_004511518.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_015720391.1
GO:0051139 - metal cation:proton antiporter activity [Evidence IEA]
CusA/CzcA family heavy metal efflux RND transporter
COORDINATES: similar to AA sequence:RefSeq:WP_004511520.1
COORDINATES: similar to AA sequence:RefSeq:WP_012647646.1
COORDINATES: similar to AA sequence:RefSeq:WP_004511521.1
COORDINATES: similar to AA sequence:RefSeq:WP_012647648.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0005506 - iron ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004511523.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937828.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010849038.1
COORDINATES: similar to AA sequence:RefSeq:WP_015155287.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011798648.1
COORDINATES: similar to AA sequence:RefSeq:WP_011366137.1
COORDINATES: similar to AA sequence:RefSeq:WP_020481713.1
COORDINATES: similar to AA sequence:RefSeq:WP_017711159.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
Eco57I restriction-modification methylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010852429.1
COORDINATES: similar to AA sequence:RefSeq:WP_010942355.1
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF022461.2
COORDINATES: protein motif:HMM:NF016258.2
GO:0019867 - outer membrane [Evidence IEA]
outer membrane protein assembly factor BamE
COORDINATES: similar to AA sequence:RefSeq:WP_012471111.1
COORDINATES: protein motif:HMM:NF015763.2
COORDINATES: similar to AA sequence:RefSeq:WP_012465765.1
COORDINATES: protein motif:HMM:NF017985.2
COORDINATES: similar to AA sequence:RefSeq:WP_020678002.1
metal-dependent transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020678000.1
GO:0015093 - ferrous iron transmembrane transporter activity [Evidence IEA]
GO:0006826 - iron ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012469846.1
COORDINATES: similar to AA sequence:RefSeq:WP_019486313.1
COORDINATES: similar to AA sequence:RefSeq:WP_004514300.1
COORDINATES: similar to AA sequence:RefSeq:WP_011941087.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010942786.1
COORDINATES: similar to AA sequence:RefSeq:WP_010942787.1
COORDINATES: similar to AA sequence:RefSeq:WP_010942788.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_010942789.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937253.1
COORDINATES: similar to AA sequence:RefSeq:WP_010942793.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_011630622.1
COORDINATES: similar to AA sequence:RefSeq:WP_019496515.1
COORDINATES: protein motif:HMM:NF015925.2
COORDINATES: similar to AA sequence:RefSeq:WP_012468287.1
COORDINATES: similar to AA sequence:RefSeq:WP_012468286.1
COORDINATES: similar to AA sequence:RefSeq:WP_011189360.1
anaerobic nitric oxide reductase flavorubredoxin
COORDINATES: similar to AA sequence:RefSeq:WP_012468288.1
GO:0005506 - iron ion binding [Evidence IEA]
GO:0030091 - protein repair [Evidence IEA]
iron-sulfur cluster repair di-iron protein
COORDINATES: similar to AA sequence:RefSeq:WP_012468303.1
COORDINATES: similar to AA sequence:RefSeq:WP_011735124.1
GO:0051536 - iron-sulfur cluster binding [Evidence IEA]; GO:0016661 - oxidoreductase activity, acting on other nitrogenous compounds as donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015721107.1
COORDINATES: similar to AA sequence:RefSeq:WP_004514008.1
COORDINATES: similar to AA sequence:RefSeq:WP_015836608.1
GO:0042597 - periplasmic space [Evidence IEA]
GO:0042279 - nitrite reductase (cytochrome, ammonia-forming) activity [Evidence IEA]
GO:0006807 - nitrogen compound metabolic process [Evidence IEA]
ammonia-forming cytochrome c nitrite reductase subunit c552
COORDINATES: similar to AA sequence:RefSeq:WP_011733816.1
IS5-like element ISPepr6 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_010943776.1
GO:0022900 - electron transport chain [Evidence IEA]
cytochrome c nitrite reductase small subunit
COORDINATES: similar to AA sequence:RefSeq:WP_011733818.1
IS1595-like element ISPepr2 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_010941619.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011940226.1
COORDINATES: similar to AA sequence:RefSeq:WP_011940225.1
COORDINATES: similar to AA sequence:RefSeq:WP_012468318.1
COORDINATES: similar to AA sequence:RefSeq:WP_010941615.1
COORDINATES: similar to AA sequence:RefSeq:WP_004085755.1
COORDINATES: similar to AA sequence:RefSeq:WP_021138877.1
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_011733826.1
IS21-like element ISPepr5 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_011733827.1
IS21-like element ISPepr5 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_004726714.1
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_010940738.1
COORDINATES: protein motif:HMM:TIGR00621.2
COORDINATES: similar to AA sequence:RefSeq:WP_012468343.1
COORDINATES: similar to AA sequence:RefSeq:WP_012468354.1
COORDINATES: protein motif:HMM:TIGR01391.1
GO:0003896 - DNA primase activity [Evidence IEA]
GO:0006269 - DNA replication, synthesis of RNA primer [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011735773.1
COORDINATES: protein motif:HMM:NF017243.2
COORDINATES: protein motif:HMM:NF022792.2
COORDINATES: protein motif:HMM:NF023203.2
COORDINATES: similar to AA sequence:RefSeq:WP_010942813.1
COORDINATES: protein motif:HMM:NF003009.0
GO:0002953 - 5'-deoxynucleotidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF024700.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015837674.1
COORDINATES: similar to AA sequence:RefSeq:WP_011457146.1
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_011736790.1
COORDINATES: similar to AA sequence:RefSeq:WP_012648430.1
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF019146.2
COORDINATES: protein motif:HMM:NF019844.2
COORDINATES: protein motif:HMM:NF013700.2
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012468391.1
COORDINATES: similar to AA sequence:RefSeq:WP_012468392.1
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: protein motif:HMM:NF021209.2
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: protein motif:HMM:NF018536.2
COORDINATES: protein motif:HMM:NF018666.2
COORDINATES: similar to AA sequence:RefSeq:WP_011734202.1
COORDINATES: protein motif:HMM:NF021212.2
COORDINATES: similar to AA sequence:RefSeq:WP_012468403.1
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: protein motif:HMM:NF017152.2
type IV conjugative transfer system protein TraE
COORDINATES: protein motif:HMM:NF018836.2
type IV conjugative transfer system protein TraL
COORDINATES: protein motif:HMM:NF024498.2
COORDINATES: protein motif:HMM:NF012894.2
COORDINATES: protein motif:HMM:NF022077.2
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: protein motif:HMM:NF025885.2
COORDINATES: protein motif:HMM:NF018697.2
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012468335.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020678078.1
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010942772.1
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: similar to AA sequence:RefSeq:WP_011737274.1
COORDINATES: similar to AA sequence:RefSeq:WP_015721341.1
COORDINATES: similar to AA sequence:RefSeq:WP_012468327.1
GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF024949.2
COORDINATES: similar to AA sequence:RefSeq:WP_012471705.1
type II toxin-antitoxin system HipA family toxin
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: protein motif:HMM:NF018933.2
COORDINATES: similar to AA sequence:RefSeq:WP_013291898.1
COORDINATES: protein motif:HMM:TIGR03734.1
COORDINATES: protein motif:HMM:NF039982.1
COORDINATES: similar to AA sequence:RefSeq:WP_008645396.1
COORDINATES: protein motif:HMM:TIGR03737.1
COORDINATES: similar to AA sequence:RefSeq:WP_006475886.1