Pacificitalea manganoxidans strain DY25 plasmid pDY25-D, 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\nCP021408.1.\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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF014417.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
transcription termination/antitermination NusG family protein
COORDINATES: protein motif:HMM:NF017857.2
COORDINATES: protein motif:HMM:NF022552.2
COORDINATES: similar to AA sequence:RefSeq:WP_009504431.1
GO:0015159 - polysaccharide transmembrane transporter activity [Evidence IEA]
GO:0015774 - polysaccharide transport [Evidence IEA]
polysaccharide biosynthesis/export family protein
COORDINATES: protein motif:HMM:NF014414.2
cyclopropane-fatty-acyl-phospholipid synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008994567.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]; GO:0003979 - UDP-glucose 6-dehydrogenase activity [Evidence IEA]
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009570190.1
GO:0004476 - mannose-6-phosphate isomerase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase
COORDINATES: similar to AA sequence:RefSeq:WP_009825758.1
COORDINATES: similar to AA sequence:RefSeq:WP_007811023.1
GO:0008446 - GDP-mannose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009807636.1
COORDINATES: similar to AA sequence:RefSeq:WP_012642359.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014876638.1
COORDINATES: similar to AA sequence:RefSeq:WP_011655513.1
COORDINATES: similar to AA sequence:RefSeq:WP_007118887.1
COORDINATES: protein motif:HMM:NF025600.2
COORDINATES: similar to AA sequence:RefSeq:WP_009504626.1
carboxypeptidase-like regulatory domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005850275.1
COORDINATES: similar to AA sequence:RefSeq:WP_007118890.1
COORDINATES: similar to AA sequence:RefSeq:WP_005851242.1
COORDINATES: similar to AA sequence:RefSeq:WP_011045931.1
COORDINATES: protein motif:HMM:TIGR00229.1
COORDINATES: protein motif:HMM:NF015724.2
COORDINATES: similar to AA sequence:RefSeq:WP_003536869.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_009208544.1
COORDINATES: similar to AA sequence:RefSeq:WP_018095209.1
COORDINATES: similar to AA sequence:RefSeq:WP_008883750.1
COORDINATES: similar to AA sequence:RefSeq:WP_008031527.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
GO:0019305 - dTDP-rhamnose biosynthetic process [Evidence IEA]; GO:0009243 - O antigen biosynthetic process [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: similar to AA sequence:RefSeq:WP_007812016.1
GO:0008831 - dTDP-4-dehydrorhamnose reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017929908.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012187399.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008035348.1
COORDINATES: protein motif:HMM:TIGR01007.1
GO:0045226 - extracellular polysaccharide biosynthetic process [Evidence IEA]
polysaccharide biosynthesis tyrosine autokinase