Pacificitalea manganoxidans strain DY25 plasmid pDY25-F, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Pacificitalea.
Comparative genomic and metabolic analysis of manganese-oxidizing mechanisms in Celeribater manganoxidans DY25T: its adaption to the environment of polymetallic nodule
Submitted (22-MAY-2017) College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao, Shandong 266003, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP021410.1.\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/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Canu v. 1.3\nAssembly Name :: CelManDY25\nLong Assembly Name :: Celeribacter manganoxidans DY25\nGenome Coverage :: 100x\nSequencing Technology :: Complete Genomics\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/31/2022 01:54:42\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) :: 3,656\nCDSs (total) :: 3,599\nGenes (coding) :: 3,554\nCDSs (with protein) :: 3,554\nGenes (RNA) :: 57\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 4\nPseudo Genes (total) :: 45\nCDSs (without protein) :: 45\nPseudo Genes (ambiguous residues) :: 0 of 45\nPseudo Genes (frameshifted) :: 19 of 45\nPseudo Genes (incomplete) :: 30 of 45\nPseudo Genes (internal stop) :: 5 of 45\nPseudo Genes (multiple problems) :: 8 of 45\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Celeribacter manganoxidans
COORDINATES: similar to AA sequence:RefSeq:WP_010443079.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013884.2
COORDINATES: similar to AA sequence:RefSeq:WP_019362492.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
Vi polysaccharide biosynthesis UDP-N-acetylglucosamine C-6 dehydrogenase TviB
COORDINATES: protein motif:HMM:NF024917.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012888.2
GO:0008146 - sulfotransferase activity [Evidence IEA]
sulfotransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014385164.1
GO:0047343 - glucose-1-phosphate cytidylyltransferase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
glucose-1-phosphate cytidylyltransferase
COORDINATES: protein motif:HMM:TIGR02622.1
GO:0047733 - CDP-glucose 4,6-dehydratase activity [Evidence IEA]
GO:0009243 - O antigen biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014746556.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity [Evidence IEA]
GO:0019305 - dTDP-rhamnose biosynthetic process [Evidence IEA]; GO:0009243 - O antigen biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019425160.1
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: protein motif:HMM:NF012360.2
COORDINATES: protein motif:HMM:NF012745.2
COORDINATES: protein motif:HMM:NF024831.2
COORDINATES: protein motif:HMM:NF024914.2
COORDINATES: protein motif:HMM:NF014805.2
COORDINATES: protein motif:HMM:NF026247.2
COORDINATES: similar to AA sequence:RefSeq:WP_020041597.1
COORDINATES: similar to AA sequence:RefSeq:WP_005854457.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008281614.1
GO:0008831 - dTDP-4-dehydrorhamnose reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018302619.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: protein motif:HMM:NF024784.2
HNH endonuclease signature motif containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012187123.1
COORDINATES: similar to AA sequence:RefSeq:WP_009805870.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017277230.1
COORDINATES: similar to AA sequence:RefSeq:WP_009805868.1
ubiquinone biosynthesis methyltransferase UbiE
COORDINATES: similar to AA sequence:RefSeq:WP_010139717.1
COORDINATES: similar to AA sequence:RefSeq:WP_017929876.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505209.1
COORDINATES: similar to AA sequence:RefSeq:WP_007331490.1
COORDINATES: protein motif:HMM:NF013793.2
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_014880617.1
type II toxin-antitoxin system HipA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019641768.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014075909.1
COORDINATES: protein motif:HMM:NF014724.2
COORDINATES: similar to AA sequence:RefSeq:WP_019429411.1
MarR family EPS-associated transcriptional regulator