Paracoccus marcusii strain CP157 plasmid pCP157_04, 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\nCP065896.1.\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: protein motif:HMM:TIGR03453.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF015393.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611445.1
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_012330561.1
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_076612188.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009465220.1
COORDINATES: similar to AA sequence:RefSeq:WP_017927543.1
GO:0017004 - cytochrome complex assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF016221.2
COORDINATES: protein motif:HMM:NF014667.2
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_011542827.1
GO:0020037 - heme binding [Evidence IEA]; GO:0005506 - iron ion binding [Evidence IEA]; GO:0016705 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009807499.1
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_009807500.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012190816.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_011582624.1
four-helix bundle copper-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_076612142.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819615.1
GO:0015109 - chromate transmembrane transporter activity [Evidence IEA]
GO:0015703 - chromate transport [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.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_018575224.1
COORDINATES: similar to AA sequence:RefSeq:WP_012092654.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503854.1
COORDINATES: similar to AA sequence:RefSeq:WP_005983429.1
COORDINATES: similar to AA sequence:RefSeq:WP_002721677.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008030629.1
COORDINATES: protein motif:HMM:NF013700.2
COORDINATES: similar to AA sequence:RefSeq:WP_019953794.1
COORDINATES: similar to AA sequence:RefSeq:WP_018001308.1
COORDINATES: similar to AA sequence:RefSeq:WP_002722637.1
COORDINATES: protein motif:HMM:NF016107.2
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: protein motif:HMM:TIGR00077.1
COORDINATES: similar to AA sequence:RefSeq:WP_008188234.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008030621.1
COORDINATES: similar to AA sequence:RefSeq:WP_010138184.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0046983 - protein dimerization activity [Evidence IEA]; GO:0046914 - transition metal ion binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
manganese-binding transcriptional regulator MntR
COORDINATES: similar to AA sequence:RefSeq:WP_008030623.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008030624.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030626.1
COORDINATES: similar to AA sequence:RefSeq:WP_009573595.1
COORDINATES: similar to AA sequence:RefSeq:WP_011347527.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030632.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011583199.1
COORDINATES: similar to AA sequence:RefSeq:WP_010683662.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006878 - cellular copper ion homeostasis [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Cu(I)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002723228.1
COORDINATES: protein motif:HMM:NF023036.2
COORDINATES: protein motif:HMM:NF012264.2
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009812249.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_009812250.1
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_018390189.1
COORDINATES: similar to AA sequence:RefSeq:WP_052642793.1
COORDINATES: protein motif:HMM:NF024867.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017739176.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012507170.1
COORDINATES: similar to AA sequence:RefSeq:WP_017739174.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0140658 - ATP-dependent chromatin remodeler activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014857614.1
COORDINATES: similar to AA sequence:RefSeq:WP_011840868.1
COORDINATES: similar to AA sequence:RefSeq:WP_009804912.1
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_018237703.1
COORDINATES: similar to AA sequence:RefSeq:WP_013067120.1
COORDINATES: similar to AA sequence:RefSeq:WP_014188821.1
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
COORDINATES: protein motif:HMM:TIGR03865.1
rhodanese-like domain-containing protein
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: similar to AA sequence:RefSeq:WP_009808043.1
COORDINATES: similar to AA sequence:RefSeq:WP_011199106.1
COORDINATES: protein motif:HMM:NF018738.2
COORDINATES: similar to AA sequence:RefSeq:WP_008190907.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212440.1
COORDINATES: protein motif:HMM:NF013775.2
COORDINATES: similar to AA sequence:RefSeq:WP_019998559.1
COORDINATES: protein motif:HMM:NF017758.2
COORDINATES: protein motif:HMM:NF013718.2
COORDINATES: similar to AA sequence:RefSeq:WP_010974409.1
COORDINATES: protein motif:HMM:NF021098.2
COORDINATES: similar to AA sequence:RefSeq:WP_015857237.1
COORDINATES: similar to AA sequence:RefSeq:WP_020851920.1
GO:0071949 - FAD binding [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0008941 - nitric oxide dioxygenase activity [Evidence IEA]; GO:0019825 - oxygen binding [Evidence IEA]
GO:0051409 - response to nitrosative stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010126910.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065911.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611977.1
COORDINATES: similar to AA sequence:RefSeq:WP_009456291.1
COORDINATES: similar to AA sequence:RefSeq:WP_013368470.1
COORDINATES: similar to AA sequence:RefSeq:WP_013300148.1
COORDINATES: similar to AA sequence:RefSeq:WP_003623691.1
COORDINATES: similar to AA sequence:RefSeq:WP_011841280.1
COORDINATES: protein motif:HMM:NF023398.2
COORDINATES: protein motif:HMM:NF014691.2
GO:0016301 - kinase activity [Evidence IEA]
type II toxin-antitoxin system death-on-curing family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_014393977.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009574211.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503864.1