Parasedimentitalea marina strain W43 plasmid pW43A, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Parasedimentitalea.
Polyphasic taxonomic analysis of Parasedimentitalea marina gen. nov., sp. nov., a psychrotolerant bacterium isolated from deep sea water of the New Britain Trench
Submitted (23-OCT-2018) Shanghai Engineering Research Center of Hadal Scicence and Technology, College of Marine Sciences, Shanghai Ocean University, 999 Huchenghuan Road, Shanghai 201306, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP033220.1.\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 Date :: JUL-2018\nAssembly Method :: Canu v. 1.3\nAssembly Name :: SHOU_W43\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 80.0x\nSequencing Technology :: Oxford Nanopore GridION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/24/2023 00:06:54\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) :: 4,919\nCDSs (total) :: 4,843\nGenes (coding) :: 4,696\nCDSs (with protein) :: 4,696\nGenes (RNA) :: 76\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 58\nncRNAs :: 3\nPseudo Genes (total) :: 147\nCDSs (without protein) :: 147\nPseudo Genes (ambiguous residues) :: 0 of 147\nPseudo Genes (frameshifted) :: 111 of 147\nPseudo Genes (incomplete) :: 47 of 147\nPseudo Genes (internal stop) :: 23 of 147\nPseudo Genes (multiple problems) :: 28 of 147\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type material of Parasedimentitalea marina
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012744.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024831.2
COORDINATES: similar to AA sequence:RefSeq:WP_014876605.1
COORDINATES: protein motif:HMM:NF022552.2
COORDINATES: protein motif:HMM:NF017857.2
COORDINATES: similar to AA sequence:RefSeq:WP_008209713.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
nucleoside-diphosphate sugar epimerase/dehydratase
COORDINATES: similar to AA sequence:RefSeq:WP_008209712.1
COORDINATES: protein motif:HMM:NF013530.2
COORDINATES: protein motif:HMM:NF014606.2
GO:0015159 - polysaccharide transmembrane transporter activity [Evidence IEA]
GO:0015774 - polysaccharide transport [Evidence IEA]
polysaccharide biosynthesis/export family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008280121.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF022436.2
COORDINATES: similar to AA sequence:RefSeq:WP_007812020.1
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_013065923.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016214.2
COORDINATES: similar to AA sequence:RefSeq:WP_019294852.1
GO:0008831 - dTDP-4-dehydrorhamnose reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019294853.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: similar to AA sequence:RefSeq:WP_014889420.1
UDP-glucose/GDP-mannose dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014876638.1
COORDINATES: similar to AA sequence:RefSeq:WP_008209615.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876599.1
COORDINATES: protein motif:HMM:NF015891.2
secretin N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012485.2
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: similar to AA sequence:RefSeq:WP_009506043.1
type II secretion system F family protein
COORDINATES: protein motif:HMM:NF025910.2
COORDINATES: protein motif:HMM:NF016493.2
GO:0015627 - type II protein secretion system complex [Evidence IEA]
GO:0015628 - protein secretion by the type II secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01709.2
COORDINATES: protein motif:HMM:NF015867.2
GO:0009306 - protein secretion [Evidence IEA]
COORDINATES: protein motif:HMM:NF023044.2
prepilin-type N-terminal cleavage/methylation domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006156909.1
type II secretion system major pseudopilin GspG
COORDINATES: protein motif:HMM:NF013632.2
COORDINATES: protein motif:HMM:NF019843.2
COORDINATES: protein motif:HMM:NF015140.2
GO:0007154 - cell communication [Evidence IEA]
COORDINATES: protein motif:HMM:NF033510.3
COORDINATES: protein motif:HMM:NF024907.2
COORDINATES: protein motif:HMM:NF015715.2
COORDINATES: protein motif:HMM:NF012573.2
COORDINATES: similar to AA sequence:RefSeq:WP_011453199.1
GO:0016853 - isomerase activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
KpsF/GutQ family sugar-phosphate isomerase
COORDINATES: similar to AA sequence:RefSeq:WP_006466070.1
COORDINATES: protein motif:HMM:NF025024.2
COORDINATES: protein motif:HMM:NF027681.2
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: protein motif:HMM:NF020459.2
COORDINATES: protein motif:HMM:NF012888.2
GO:0008146 - sulfotransferase activity [Evidence IEA]
sulfotransferase domain-containing protein
COORDINATES: protein motif:HMM:NF016071.2
COORDINATES: protein motif:HMM:NF020137.2
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_011748412.1
COORDINATES: similar to AA sequence:RefSeq:WP_009825772.1
COORDINATES: protein motif:HMM:NF024968.2
COORDINATES: protein motif:HMM:NF012745.2
COORDINATES: protein motif:HMM:NF025072.2
COORDINATES: similar to AA sequence:RefSeq:WP_014876606.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876607.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294855.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889396.1
COORDINATES: similar to AA sequence:RefSeq:WP_020035265.1
COORDINATES: similar to AA sequence:RefSeq:WP_010139214.1
COORDINATES: similar to AA sequence:RefSeq:WP_009160276.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876637.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009816124.1
COORDINATES: protein motif:HMM:NF037980.1
type II secretion system minor pseudopilin GspK
COORDINATES: protein motif:HMM:NF019575.2
COORDINATES: protein motif:HMM:NF019229.2
COORDINATES: similar to AA sequence:RefSeq:WP_007206250.1
GO:0005615 - extracellular space [Evidence IEA]
GO:0005509 - calcium ion binding [Evidence IEA]
M10 family metallopeptidase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010139405.1
COORDINATES: similar to AA sequence:RefSeq:WP_009816556.1