Paracoccus marcusii strain CP157 plasmid pCP157_05, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Paracoccus.
High Potential for Secondary Metabolite Production of Paracoccus marcusii CP157, Isolated From the Crustacean Cancer pagurus
Submitted (10-DEC-2020) Institute for Chemistry and Biology of the Marine Environment, University of Oldenburg, Carl-von-Ossietzky Strasse 9-11, Oldenburg 26129, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP065897.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: HGAP SMRTPortal v. 2.3.0\nGenome Coverage :: 65x\nSequencing Technology :: PacBio; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 06:10:02\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) :: 4,059\nCDSs (total) :: 3,997\nGenes (coding) :: 3,913\nCDSs (with protein) :: 3,913\nGenes (RNA) :: 62\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 84\nCDSs (without protein) :: 84\nPseudo Genes (ambiguous residues) :: 0 of 84\nPseudo Genes (frameshifted) :: 47 of 84\nPseudo Genes (incomplete) :: 43 of 84\nPseudo Genes (internal stop) :: 20 of 84\nPseudo Genes (multiple problems) :: 23 of 84\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_009827042.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009820070.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_009503869.1
COORDINATES: similar to AA sequence:RefSeq:WP_028713484.1
frameshifted; 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_007284653.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_007253673.1
COORDINATES: protein motif:HMM:NF013736.2
GO:0004673 - protein histidine kinase activity [Evidence IEA]
HWE histidine kinase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007760130.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611562.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011748062.1
GO:0016722 - oxidoreductase activity, acting on metal ions [Evidence IEA]
DNA starvation/stationary phase protection protein Dps
COORDINATES: similar to AA sequence:RefSeq:WP_076611367.1
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:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002730641.1
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: similar to AA sequence:RefSeq:WP_013654839.1
COORDINATES: similar to AA sequence:RefSeq:WP_007635327.1
GO:0015074 - DNA integration [Evidence IEA]
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.
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_012778812.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018641553.1
GO:0015250 - water channel activity [Evidence IEA]
GO:0006833 - water transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF024013.2
COORDINATES: similar to AA sequence:RefSeq:WP_013959931.1
COORDINATES: similar to AA sequence:RefSeq:WP_020820237.1
COORDINATES: protein motif:HMM:NF025085.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611156.1
COORDINATES: protein motif:HMM:NF024701.2
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:TIGR01730.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_014875365.1
COORDINATES: similar to AA sequence:RefSeq:WP_009450491.1
COORDINATES: similar to AA sequence:RefSeq:WP_016554856.1
COORDINATES: similar to AA sequence:RefSeq:WP_014857771.1
phage integrase N-terminal SAM-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018575427.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: protein motif:HMM:NF018691.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010141884.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017999106.1
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: similar to AA sequence:RefSeq:WP_014880587.1
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: similar to AA sequence:RefSeq:WP_009808065.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_009803689.1
COORDINATES: protein motif:HMM:NF019608.2
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009803693.1
COORDINATES: protein motif:HMM:NF016957.2
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_010138154.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820237.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009803697.1
COORDINATES: similar to AA sequence:RefSeq:WP_012653148.1
COORDINATES: similar to AA sequence:RefSeq:WP_008878414.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819931.1
COORDINATES: similar to AA sequence:RefSeq:WP_011199106.1
COORDINATES: similar to AA sequence:RefSeq:WP_011510098.1
COORDINATES: protein motif:HMM:NF013718.2
COORDINATES: protein motif:HMM:NF017758.2
COORDINATES: similar to AA sequence:RefSeq:WP_019998559.1
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018261245.1
COORDINATES: protein motif:HMM:NF021098.2
COORDINATES: protein motif:HMM:NF025605.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611977.1
COORDINATES: similar to AA sequence:RefSeq:WP_019999018.1
COORDINATES: similar to AA sequence:RefSeq:WP_001173919.1
COORDINATES: protein motif:HMM:NF024267.2
COORDINATES: similar to AA sequence:RefSeq:WP_013067383.1
FIST N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012179335.1
COORDINATES: similar to AA sequence:RefSeq:WP_013067120.1
COORDINATES: similar to AA sequence:RefSeq:WP_009466733.1
PQQ-dependent methanol/ethanol family dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_010394426.1
quinoprotein relay system zinc metallohydrolase 1
COORDINATES: similar to AA sequence:RefSeq:WP_013067123.1
quinoprotein dehydrogenase-associated SoxYZ-like carrier
COORDINATES: similar to AA sequence:RefSeq:WP_012179324.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03865.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611302.1
COORDINATES: similar to AA sequence:RefSeq:WP_008281741.1
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:NF019128.2
COORDINATES: protein motif:HMM:TIGR00765.1
YihY/virulence factor BrkB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006834290.1
COORDINATES: similar to AA sequence:RefSeq:WP_012640911.1
COORDINATES: similar to AA sequence:RefSeq:WP_012072082.1
COORDINATES: protein motif:HMM:NF023398.2