Pseudosulfitobacter pseudonitzschiae strain H46 plasmid unnamed8, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Pseudosulfitobacter.
De novo assembly of human genomes with massively parallel short read sequencing
Submitted (05-JUN-2020) Ministry of natural resources, The first Institute of Oceanography, ZhongHan Street, QingDao 266100, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP054607.1.\nBacteria and source DNA available from China Qingdao Laoshan\nDistrict The first Institute of Oceanography Zheng Li.\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 :: CLC NGS Cell v. February-2020\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 103.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 06/01/2023 23:18:00\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,846\nCDSs (total) :: 4,793\nGenes (coding) :: 4,747\nCDSs (with protein) :: 4,747\nGenes (RNA) :: 53\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 44\nncRNAs :: 3\nPseudo Genes (total) :: 46\nCDSs (without protein) :: 46\nPseudo Genes (ambiguous residues) :: 0 of 46\nPseudo Genes (frameshifted) :: 19 of 46\nPseudo Genes (incomplete) :: 23 of 46\nPseudo Genes (internal stop) :: 9 of 46\nPseudo Genes (multiple problems) :: 4 of 46\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
shallow sea, symbosis with harmful algal bloom algae
COORDINATES: similar to AA sequence:RefSeq:WP_011331421.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014273.2
ParB/Srx family N-terminal domain-containing protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010400636.1
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: protein motif:HMM:NF012651.2
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: protein motif:HMM:NF019324.2
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_012115672.1
COORDINATES: protein motif:HMM:NF022019.2
COORDINATES: similar to AA sequence:RefSeq:WP_011538662.1
COORDINATES: similar to AA sequence:RefSeq:WP_018575427.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: similar to AA sequence:RefSeq:WP_009807939.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009807938.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015495990.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008327400.1
COORDINATES: similar to AA sequence:RefSeq:WP_009803686.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327387.1
COORDINATES: similar to AA sequence:RefSeq:WP_009803688.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_009807512.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820232.1
COORDINATES: similar to AA sequence:RefSeq:WP_009803691.1
GO:0016798 - hydrolase activity, acting on glycosyl bonds [Evidence IEA]
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012187325.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327373.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_009574150.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327370.1
COORDINATES: similar to AA sequence:RefSeq:WP_009808055.1
COORDINATES: similar to AA sequence:RefSeq:WP_010398642.1
COORDINATES: protein motif:HMM:NF015393.2
COORDINATES: similar to AA sequence:RefSeq:WP_017876753.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012187119.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187118.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187117.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012187116.1
energy-coupling factor transporter transmembrane protein EcfT
COORDINATES: protein motif:HMM:NF018621.2
COORDINATES: similar to AA sequence:RefSeq:WP_012187115.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331417.1
GO:0008233 - peptidase activity [Evidence IEA]; GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008035785.1
COORDINATES: similar to AA sequence:RefSeq:WP_008563287.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008560068.1
COORDINATES: similar to AA sequence:RefSeq:WP_008204211.1
COORDINATES: protein motif:HMM:NF012699.2
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016717 - oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF013761.2
COORDINATES: protein motif:HMM:NF012488.2
aminotransferase class V-fold PLP-dependent enzyme