Spartinivicinus ruber strain S2-4-1H plasmid pA, 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\nCP048879.1.\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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: protein motif:HMM:TIGR00616.1
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024096.2
PD-(D/E)XK nuclease-like domain-containing protein
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF022495.2
COORDINATES: protein motif:HMM:TIGR00697.1
GO:1990397 - queuosine salvage [Evidence IEA]
COORDINATES: protein motif:HMM:NF025842.2
COORDINATES: protein motif:HMM:NF012920.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF012422.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
LuxR C-terminal-related transcriptional regulator
COORDINATES: protein motif:HMM:NF013098.2
COORDINATES: protein motif:HMM:NF012312.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF012647.2
COORDINATES: protein motif:HMM:NF013961.2
polymorphic toxin-type HINT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012367029.1
COORDINATES: similar to AA sequence:RefSeq:WP_012127717.1
COORDINATES: protein motif:HMM:TIGR00621.2
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010323640.1
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF038368.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450045.1
COORDINATES: similar to AA sequence:RefSeq:WP_020508067.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: protein motif:HMM:NF022288.2
COORDINATES: protein motif:HMM:NF013231.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011734136.1
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009670607.1
COORDINATES: similar to AA sequence:RefSeq:WP_012153861.1
COORDINATES: protein motif:HMM:NF024861.2
COORDINATES: protein motif:HMM:TIGR01764.1
COORDINATES: similar to AA sequence:RefSeq:WP_003616345.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF033545.0
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
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_020507564.1
GO:0012506 - vesicle membrane [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006871726.1
COORDINATES: similar to AA sequence:RefSeq:WP_004569107.1
COORDINATES: protein motif:HMM:NF016976.2
COORDINATES: protein motif:HMM:NF018129.2
COORDINATES: protein motif:HMM:NF016102.2
COORDINATES: similar to AA sequence:RefSeq:WP_020503491.1
There are 14 genes on the gvp gene cluster in halophilic archaea. The product of gvpA is a structural component of gas vesicles, which provide buoyancy to cells and promote flotation. It has been reported that the products of gvpAO and gvpFGJKLM represent the minimal set required for gas vesicle formation in halophilic archaea; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011770094.1
GO:0031412 - gas vesicle organization [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008230260.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
DDE-type integrase/transposase/recombinase
COORDINATES: protein motif:HMM:NF040127.1
COORDINATES: protein motif:HMM:NF014404.2
COORDINATES: protein motif:HMM:NF017114.2
GO:0046556 - alpha-L-arabinofuranosidase activity [Evidence IEA]
GO:0046373 - L-arabinose metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF040024.1
COORDINATES: similar to AA sequence:RefSeq:WP_015244139.1
COORDINATES: protein motif:HMM:NF019023.2
COORDINATES: protein motif:HMM:NF024894.2
COORDINATES: protein motif:HMM:TIGR03361.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0033103 - protein secretion by the type VI secretion system [Evidence IEA]
type VI secretion system tip protein TssI/VgrG
COORDINATES: similar to AA sequence:RefSeq:WP_015730756.1
COORDINATES: protein motif:HMM:NF014626.2
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_000457616.1
COORDINATES: similar to AA sequence:RefSeq:WP_020210723.1
COORDINATES: similar to AA sequence:RefSeq:WP_011146306.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006006571.1
COORDINATES: similar to AA sequence:RefSeq:WP_000034825.1
COORDINATES: similar to AA sequence:RefSeq:WP_017879703.1
COORDINATES: similar to AA sequence:RefSeq:WP_015504172.1
COORDINATES: similar to AA sequence:RefSeq:WP_012070287.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497334.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_015434593.1
COORDINATES: similar to AA sequence:RefSeq:WP_009756416.1
COORDINATES: similar to AA sequence:RefSeq:WP_011213975.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012219870.1
COORDINATES: protein motif:HMM:NF025253.2
COORDINATES: protein motif:HMM:NF016595.2
COORDINATES: similar to AA sequence:RefSeq:WP_007677687.1
COORDINATES: similar to AA sequence:RefSeq:WP_020195270.1
COORDINATES: similar to AA sequence:RefSeq:WP_020195272.1
COORDINATES: similar to AA sequence:RefSeq:WP_014980797.1
COORDINATES: similar to AA sequence:RefSeq:WP_012219903.1
COORDINATES: similar to AA sequence:RefSeq:WP_012219872.1
lipopolysaccharide biosynthesis protein BplA
COORDINATES: protein motif:HMM:NF012707.2
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012219881.1
COORDINATES: protein motif:HMM:NF037905.2
coiled-coil domain-containing protein 22
COORDINATES: protein motif:HMM:NF037921.2
COORDINATES: protein motif:HMM:NF016724.2
COORDINATES: protein motif:HMM:NF018886.2