Phaeobacter piscinae strain S26 plasmid pS26_80, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Phaeobacter.
The broad-spectrum antibiotic tropodithietic acid influences cell morphology in the native producer
Submitted (30-JUN-2021) DTU Bioengineering, Technical University of Denmark, Soltofts Plads 221, Kgs. Lyngby 2800, Denmark
Submitted (03-NOV-2014) Department of Systems Biology, Technical University of Denmark, Matematiktorvet, Building 301, Lyngby 2800, Denmark
REFSEQ INFORMATION: The reference sequence is identical to\nCP080278.1.\nBacteria and source DNA available from Lone Gram, Technical\nUniversity of Denmark.\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 :: 21-JAN-2021\nAssembly Method :: Unicycler v. v0.4.7\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 473.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 07/29/2022 01:19:34\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,048\nCDSs (total) :: 3,975\nGenes (coding) :: 3,951\nCDSs (with protein) :: 3,951\nGenes (RNA) :: 73\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 58\nncRNAs :: 3\nPseudo Genes (total) :: 24\nCDSs (without protein) :: 24\nPseudo Genes (ambiguous residues) :: 0 of 24\nPseudo Genes (frameshifted) :: 7 of 24\nPseudo Genes (incomplete) :: 20 of 24\nPseudo Genes (internal stop) :: 8 of 24\nPseudo Genes (multiple problems) :: 7 of 24\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:NF014805.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008086394.1
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_014889431.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187103.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018238875.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012993.2
nitrilase-related carbon-nitrogen hydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_015950396.1
COORDINATES: similar to AA sequence:RefSeq:WP_009835821.1
COORDINATES: protein motif:HMM:NF024242.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012523129.1
COORDINATES: similar to AA sequence:RefSeq:WP_018925333.1
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]
COORDINATES: similar to AA sequence:RefSeq:WP_086558111.1
frameshifted; 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_009807926.1
frameshifted; internal stop; 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_014889440.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889441.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876544.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876545.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876546.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014876547.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442690.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889447.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876550.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876551.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876552.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889451.1
proton-conducting transporter membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_011538178.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876555.1
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_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_014876558.1
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_008563446.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0019464 - glycine decarboxylation via glycine cleavage system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014889456.1
GO:0004375 - glycine dehydrogenase (decarboxylating) activity [Evidence IEA]
aminomethyl-transferring glycine dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_014876562.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889459.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889460.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014889461.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
iron chelate uptake ABC transporter family permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_014889462.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876569.1
siderophore ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014889464.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876577.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876578.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889472.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889473.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014876581.1
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_014889476.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889478.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_007120718.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889480.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889482.1
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014876589.1
COORDINATES: similar to AA sequence:RefSeq:WP_008208310.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005610307.1
COORDINATES: similar to AA sequence:RefSeq:WP_008208306.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876533.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876534.1
hydrogen peroxide-inducible genes activator
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_014889429.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876540.1
GO:0071949 - FAD binding [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0008941 - nitric oxide dioxygenase activity [Evidence IEA]; GO:0019825 - oxygen binding [Evidence IEA]
GO:0051409 - response to nitrosative stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008086399.1
COORDINATES: protein motif:HMM:NF024846.2