Teredinibacter purpureus strain Bs12 plasmid Bs12_MP, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Cellvibrionales; Cellvibrionaceae; Teredinibacter.
Teredinibacter haidensis sp. nov., Teredinibacter flospurpura sp. nov., and Teredinibacter franksiae sp. nov., marine, cellulolytic endosymbiotic bacteria isolated from the gills of the wood-boring mollusc Bankia setacea (Bivalvia: Teredinidae)
Submitted (07-AUG-2020) Ocean Genome Legacy Center, Marine Science Center, Northeastern University, 430 Nahant Road, Nahant, MA 01908, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP060093.1.\nBacteria and source DNA available from ATCC and KCTC.\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 Date :: 07-JUL-2020\nAssembly Method :: HGAP v. 2.0; Velvet v. 1.0.9; Geneious v.\n 10.2.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 210.0x\nSequencing Technology :: PacBio RS; Illumina; Sanger\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/15/2022 01:34:07\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) :: 4,405\nCDSs (total) :: 4,357\nGenes (coding) :: 4,313\nCDSs (with protein) :: 4,313\nGenes (RNA) :: 48\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 38\nncRNAs :: 4\nPseudo Genes (total) :: 44\nCDSs (without protein) :: 44\nPseudo Genes (ambiguous residues) :: 0 of 44\nPseudo Genes (frameshifted) :: 12 of 44\nPseudo Genes (incomplete) :: 34 of 44\nPseudo Genes (internal stop) :: 7 of 44\nPseudo Genes (multiple problems) :: 6 of 44\nCRISPR Arrays :: 1\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: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]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013980.2
COORDINATES: protein motif:HMM:NF020354.2
COORDINATES: protein motif:HMM:NF012372.2
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011362088.1
COORDINATES: protein motif:HMM:NF018500.2
COORDINATES: protein motif:HMM:NF012403.2
COORDINATES: similar to AA sequence:RefSeq:WP_012187348.1
COORDINATES: similar to AA sequence:RefSeq:WP_008284595.1
GO:0006402 - mRNA catabolic process [Evidence IEA]; GO:0006109 - regulation of carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011000215.1
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_076611969.1
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_012554371.1
COORDINATES: similar to AA sequence:RefSeq:WP_018415334.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
ribonucleoside-diphosphate reductase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_007226809.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0009263 - deoxyribonucleotide biosynthetic process [Evidence IEA]
ribonucleotide-diphosphate reductase subunit beta
COORDINATES: protein motif:HMM:NF013704.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF012789.2
COORDINATES: similar to AA sequence:RefSeq:WP_000221447.1
COORDINATES: protein motif:HMM:NF013324.2
COORDINATES: protein motif:HMM:TIGR03623.1
COORDINATES: protein motif:HMM:NF013884.2
COORDINATES: protein motif:HMM:NF013593.2
COORDINATES: similar to AA sequence:RefSeq:WP_007232806.1
GO:0008094 - ATP-dependent activity, acting on DNA [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: protein motif:HMM:NF014759.2
COORDINATES: protein motif:HMM:NF012743.2
COORDINATES: protein motif:HMM:NF019421.2
COORDINATES: protein motif:HMM:NF021428.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF014567.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF012772.2
GGDEF domain-containing phosphodiesterase
COORDINATES: similar to AA sequence:RefSeq:WP_015157679.1
COORDINATES: similar to AA sequence:RefSeq:WP_015328749.1
COORDINATES: similar to AA sequence:RefSeq:WP_001737784.1
COORDINATES: similar to AA sequence:RefSeq:WP_011711584.1
COORDINATES: similar to AA sequence:RefSeq:WP_013141633.1
COORDINATES: protein motif:HMM:NF012801.2
COORDINATES: protein motif:HMM:NF014566.2
CPBP family intramembrane metalloprotease
COORDINATES: protein motif:HMM:NF014244.2
COORDINATES: protein motif:HMM:NF019315.2
COORDINATES: protein motif:HMM:NF019151.2
COORDINATES: protein motif:HMM:NF016281.2
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF003743.0
GO:0016462 - pyrophosphatase activity [Evidence IEA]
GO:0009245 - lipid A biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024804.2
winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013512847.1
COORDINATES: protein motif:HMM:NF012798.2
HNH endonuclease signature motif containing protein
COORDINATES: protein motif:HMM:NF016724.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020410294.1
COORDINATES: protein motif:HMM:NF024606.2
TerB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006705080.1
COORDINATES: protein motif:HMM:NF013630.2
LysM peptidoglycan-binding domain-containing protein
COORDINATES: protein motif:HMM:NF013395.2
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF016362.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:NF023713.2
COORDINATES: protein motif:HMM:NF022835.2
DotI/IcmL family type IV secretion protein
COORDINATES: protein motif:HMM:NF005829.0
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF013618.2
lytic transglycosylase domain-containing protein
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011864793.1
COORDINATES: protein motif:HMM:NF018148.2
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: protein motif:HMM:NF028242.2
COORDINATES: protein motif:HMM:NF028126.2
Members of this family include DotD of type IVB secretion systems and TraH of plasmid conjugative plasmid systems, both lipoproteins; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF021759.2
COORDINATES: similar to AA sequence:RefSeq:NP_249847.1
COORDINATES: similar to AA sequence:RefSeq:WP_020210846.1
COORDINATES: protein motif:HMM:NF037922.2
COORDINATES: similar to AA sequence:RefSeq:WP_011793730.1
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: protein motif:HMM:NF015957.2
COORDINATES: similar to AA sequence:RefSeq:WP_017403285.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF037735.2
COORDINATES: similar to AA sequence:RefSeq:WP_015930158.1
COORDINATES: similar to AA sequence:RefSeq:WP_013030090.1
COORDINATES: similar to AA sequence:RefSeq:WP_011872406.1