Phaeobacter porticola strain P97 plasmid pP97_e, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Phaeobacter.
Adaptation of Surface-Associated Bacteria to the Open Ocean: A Genomically Distinct Subpopulation of Phaeobacter gallaeciensis Colonizes Pacific Mesozooplankton
Phaeobacter porticola sp. nov., an antibiotic-producing bacterium isolated from a sea harbour
Submitted (06-JUL-2016) Microbial Ecology and Diversity, Leibniz Institute DSMZ, Inhoffenstr. 7 B, Braunschweig 38124, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP016369.1.\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\nAssembly Name :: p97_hgap_1c_gs\nGenome Coverage :: 140x\nSequencing Technology :: PacBio; Illumina HiSeq 2500\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/13/2023 02:25:34\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) :: 4,020\nCDSs (total) :: 3,948\nGenes (coding) :: 3,898\nCDSs (with protein) :: 3,898\nGenes (RNA) :: 72\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 57\nncRNAs :: 3\nPseudo Genes (total) :: 50\nCDSs (without protein) :: 50\nPseudo Genes (ambiguous residues) :: 0 of 50\nPseudo Genes (frameshifted) :: 23 of 50\nPseudo Genes (incomplete) :: 31 of 50\nPseudo Genes (internal stop) :: 18 of 50\nPseudo Genes (multiple problems) :: 18 of 50\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_014889423.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005610307.1
COORDINATES: similar to AA sequence:RefSeq:WP_008208310.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014889483.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889482.1
transporter substrate-binding domain-containing protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013231.2
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_014889480.1
COORDINATES: similar to AA sequence:RefSeq:WP_015495845.1
COORDINATES: similar to AA sequence:RefSeq:WP_008206071.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_014889476.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876582.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009158423.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889473.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009157880.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
cyclic nucleotide-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008086399.1
COORDINATES: protein motif:HMM:NF024846.2
COORDINATES: similar to AA sequence:RefSeq:WP_011534460.1
GO:0010468 - regulation of gene expression [Evidence IEA]
COORDINATES: protein motif:HMM:NF014805.2
COORDINATES: similar to AA sequence:RefSeq:WP_016943607.1
GO:0008701 - 4-hydroxy-2-oxovalerate aldolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008453240.1
GO:0008774 - acetaldehyde dehydrogenase (acetylating) activity [Evidence IEA]
acetaldehyde dehydrogenase (acetylating)
COORDINATES: protein motif:HMM:NF012382.2
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_014876562.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014889456.1
GO:0004375 - glycine dehydrogenase (decarboxylating) activity [Evidence IEA]
GO:0019464 - glycine decarboxylation via glycine cleavage system [Evidence IEA]
aminomethyl-transferring glycine dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_008563446.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008209508.1
GO:0004047 - aminomethyltransferase activity [Evidence IEA]
GO:0006546 - glycine catabolic process [Evidence IEA]
glycine cleavage system aminomethyltransferase GcvT
COORDINATES: similar to AA sequence:RefSeq:WP_014876558.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876557.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0016992 - lipoate synthase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
GO:0009107 - lipoate biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014889453.1
GO:0004148 - dihydrolipoyl dehydrogenase activity [Evidence IEA]
GO:0045454 - cell redox homeostasis [Evidence IEA]; GO:0051068 - dihydrolipoamide metabolic process [Evidence IEA]; GO:0006096 - glycolytic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014876555.1
COORDINATES: similar to AA sequence:RefSeq:WP_026155209.1
COORDINATES: similar to AA sequence:RefSeq:WP_014881743.1
COORDINATES: similar to AA sequence:RefSeq:WP_014881817.1
COORDINATES: protein motif:HMM:NF019128.2
COORDINATES: similar to AA sequence:RefSeq:WP_018065752.1
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_014889426.1
GO:0004096 - catalase activity [Evidence IEA]; GO:0004601 - peroxidase activity [Evidence IEA]
GO:0006979 - response to oxidative stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014876534.1
hydrogen peroxide-inducible genes activator
COORDINATES: similar to AA sequence:RefSeq:WP_014876533.1