Spartinivicinus ruber strain S2-4-1H plasmid pB, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Oceanospirillales; Zooshikellaceae; Spartinivicinus.
Spartinivicinus ruber gen. nov., sp. nov., a novel marine bacterium producing both heptylprodigiosin and cycloheptylprodigiosin as major red pigments
Submitted (19-FEB-2020) College of Marine and Food Sciences, Quanzhou Normal University, Donghai Road 398, Quanzhou, Fujian Province 361000, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP048880.1.\nBacteria and source DNA also vailable from MCCC.\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-Assembly-Data-START##\nAssembly Method :: SPAdes v. 3.8.0; Celera Assembler v. 1.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: PacBio RSII; Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/16/2022 03:55:47\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 6,129\nCDSs (total) :: 6,048\nGenes (coding) :: 5,951\nCDSs (with protein) :: 5,951\nGenes (RNA) :: 81\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 65\nncRNAs :: 4\nPseudo Genes (total) :: 97\nCDSs (without protein) :: 97\nPseudo Genes (ambiguous residues) :: 0 of 97\nPseudo Genes (frameshifted) :: 22 of 97\nPseudo Genes (incomplete) :: 73 of 97\nPseudo Genes (internal stop) :: 7 of 97\nPseudo Genes (multiple problems) :: 5 of 97\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_013105928.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013260571.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF008284.0
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF014534.2
HPF/RaiA family ribosome-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_011238158.1
COORDINATES: similar to AA sequence:RefSeq:WP_001261049.1
COORDINATES: similar to AA sequence:RefSeq:WP_018313395.1
VapC toxin family PIN domain ribonuclease
COORDINATES: protein motif:HMM:NF013636.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
proprotein convertase P-domain-containing protein
COORDINATES: protein motif:HMM:NF024997.2
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_018002452.1
COORDINATES: similar to AA sequence:RefSeq:WP_000034825.1
COORDINATES: similar to AA sequence:RefSeq:WP_010968936.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011351947.1
COORDINATES: similar to AA sequence:RefSeq:WP_011655384.1
COORDINATES: protein motif:HMM:NF027249.2
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_018576536.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_000767829.1
COORDINATES: similar to AA sequence:RefSeq:WP_013819479.1
COORDINATES: similar to AA sequence:RefSeq:WP_020561883.1
COORDINATES: similar to AA sequence:RefSeq:WP_011043000.1
COORDINATES: protein motif:HMM:TIGR03696.1
COORDINATES: similar to AA sequence:RefSeq:WP_002556002.1
COORDINATES: similar to AA sequence:RefSeq:WP_004073108.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF012707.2
transporter substrate-binding domain-containing protein
COORDINATES: protein motif:HMM:NF014626.2
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012908790.1
COORDINATES: similar to AA sequence:RefSeq:WP_017049926.1
COORDINATES: similar to AA sequence:RefSeq:WP_013006610.1
COORDINATES: similar to AA sequence:RefSeq:WP_004822111.1
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03033.1
COORDINATES: protein motif:HMM:NF014045.2
COORDINATES: protein motif:HMM:NF012920.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011497688.1
COORDINATES: protein motif:HMM:TIGR01610.1
COORDINATES: protein motif:HMM:NF018671.2
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008145665.1
COORDINATES: protein motif:HMM:NF037889.2
COORDINATES: similar to AA sequence:RefSeq:WP_007226823.1
COORDINATES: similar to AA sequence:RefSeq:WP_019620814.1
COORDINATES: similar to AA sequence:RefSeq:WP_013813398.1
COORDINATES: protein motif:HMM:NF015947.2
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019028259.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008186 - ATP-dependent activity, acting on RNA [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
GO:0006353 - DNA-templated transcription termination [Evidence IEA]
COORDINATES: protein motif:HMM:NF022795.2
COORDINATES: protein motif:HMM:NF016835.2
COORDINATES: similar to AA sequence:RefSeq:WP_003175036.1
COORDINATES: similar to AA sequence:RefSeq:WP_017736503.1
COORDINATES: similar to AA sequence:RefSeq:WP_011267979.1
GO:0044423 - virion component [Evidence IEA]
GO:0016032 - viral process [Evidence IEA]; GO:0019068 - virion assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015985136.1
COORDINATES: similar to AA sequence:RefSeq:WP_016660601.1
COORDINATES: protein motif:HMM:NF024943.2
COORDINATES: protein motif:HMM:NF039819.1
COORDINATES: protein motif:HMM:NF040129.1
COORDINATES: protein motif:HMM:TIGR02218.1
COORDINATES: similar to AA sequence:RefSeq:WP_011634509.1
COORDINATES: similar to AA sequence:RefSeq:WP_012479812.1
COORDINATES: protein motif:HMM:NF024939.2
COORDINATES: protein motif:HMM:NF022436.2
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: protein motif:HMM:TIGR00180.1
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: similar to AA sequence:RefSeq:WP_018691466.1
COORDINATES: similar to AA sequence:RefSeq:YP_005224519.1
COORDINATES: protein motif:HMM:NF017315.2
COORDINATES: similar to AA sequence:RefSeq:WP_017158439.1
COORDINATES: protein motif:HMM:NF017243.2
COORDINATES: protein motif:HMM:NF012790.2
rhodanese-like domain-containing protein
COORDINATES: protein motif:HMM:NF024895.2
COORDINATES: similar to AA sequence:RefSeq:WP_020651377.1
COORDINATES: protein motif:HMM:NF025079.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611200.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013676.2
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_019868608.1
GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0005515 - protein binding [Evidence IEA]
putative toxin-antitoxin system toxin component, PIN family
COORDINATES: similar to AA sequence:RefSeq:WP_018015383.1
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019361860.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018420509.1
COORDINATES: similar to AA sequence:RefSeq:WP_020406120.1
COORDINATES: similar to AA sequence:RefSeq:WP_018299502.1
COORDINATES: similar to AA sequence:RefSeq:WP_013262625.1
COORDINATES: similar to AA sequence:RefSeq:WP_017294894.1
COORDINATES: similar to AA sequence:RefSeq:WP_018404404.1
COORDINATES: similar to AA sequence:RefSeq:WP_015052552.1