Paludisphaera borealis strain PX4 plasmid PALBO1, complete sequence.
Bacteria; Planctomycetota; Planctomycetia; Isosphaerales; Isosphaeraceae; Paludisphaera.
Comparative Genomics of Four Isosphaeraceae Planctomycetes: A Common Pool of Plasmids and Glycoside Hydrolase Genes Shared by Paludisphaera borealis PX4T, Isosphaera pallida IS1BT, Singulisphaera acidiphila DSM 18658T, and Strain SH-PL62
Submitted (23-DEC-2016) Department of Microbiology, Research Center of Biotechnology of RAS, Prospect 60-Letya Octyabrya 7/2, Moscow 117312, Russian Federation
REFSEQ INFORMATION: The reference sequence is identical to\nCP019083.1.\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 v. 2\nGenome Coverage :: 60x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/13/2023 03:08:56\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) :: 5,890\nCDSs (total) :: 5,805\nGenes (coding) :: 5,770\nCDSs (with protein) :: 5,770\nGenes (RNA) :: 85\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 73\nncRNAs :: 3\nPseudo Genes (total) :: 35\nCDSs (without protein) :: 35\nPseudo Genes (ambiguous residues) :: 0 of 35\nPseudo Genes (frameshifted) :: 10 of 35\nPseudo Genes (incomplete) :: 23 of 35\nPseudo Genes (internal stop) :: 3 of 35\nPseudo Genes (multiple problems) :: 1 of 35\nCRISPR Arrays :: 1\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:NF013636.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_015250670.1
COORDINATES: protein motif:HMM:NF024824.2
COORDINATES: similar to AA sequence:RefSeq:WP_006890970.1
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: protein motif:HMM:NF028007.2
COORDINATES: similar to AA sequence:RefSeq:WP_011140461.1
COORDINATES: similar to AA sequence:RefSeq:WP_014778506.1
GO:0016779 - nucleotidyltransferase activity [Evidence IEA]
GO:0009244 - lipopolysaccharide core region biosynthetic process [Evidence IEA]
D-glycero-beta-D-manno-heptose 1-phosphate adenylyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_017300718.1
COORDINATES: protein motif:HMM:NF013245.2
COORDINATES: similar to AA sequence:RefSeq:WP_016863269.1
COORDINATES: similar to AA sequence:RefSeq:WP_009797980.1
COORDINATES: similar to AA sequence:RefSeq:WP_006342094.1
glucose-1-phosphate cytidylyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_014435653.1
COORDINATES: similar to AA sequence:RefSeq:WP_012561795.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013925674.1
COORDINATES: similar to AA sequence:RefSeq:WP_015248186.1
COORDINATES: similar to AA sequence:RefSeq:WP_009554624.1
COORDINATES: protein motif:HMM:NF012905.2
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_008682145.1
WecB/TagA/CpsF family glycosyltransferase
COORDINATES: protein motif:HMM:NF021254.2
exosortase/archaeosortase family protein
COORDINATES: protein motif:HMM:TIGR01007.1
GO:0045226 - extracellular polysaccharide biosynthetic process [Evidence IEA]
polysaccharide biosynthesis tyrosine autokinase
COORDINATES: protein motif:HMM:NF023410.2
exosortase-associated EpsI family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010872889.1
COORDINATES: protein motif:HMM:NF039992.1
COORDINATES: similar to AA sequence:RefSeq:WP_009101909.1
COORDINATES: similar to AA sequence:RefSeq:WP_011553902.1
COORDINATES: similar to AA sequence:RefSeq:WP_006488416.1
GO:0004619 - phosphoglycerate mutase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
2,3-diphosphoglycerate-dependent phosphoglycerate mutase
COORDINATES: similar to AA sequence:RefSeq:WP_015245903.1
GO:0016811 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Evidence IEA]
COORDINATES: protein motif:HMM:NF012904.2
dihydrodipicolinate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015246794.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008691181.1
GO:0008236 - serine-type peptidase activity [Evidence IEA]
prolyl oligopeptidase family serine peptidase
COORDINATES: protein motif:HMM:NF028476.2
COORDINATES: similar to AA sequence:RefSeq:WP_004447869.1
COORDINATES: similar to AA sequence:RefSeq:WP_013033540.1
TAT-variant-translocated molybdopterin oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_013112226.1
COORDINATES: similar to AA sequence:RefSeq:WP_011682278.1
COORDINATES: similar to AA sequence:RefSeq:WP_013177521.1
COORDINATES: protein motif:HMM:NF014667.2
COORDINATES: similar to AA sequence:RefSeq:WP_007414099.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007414098.1
COORDINATES: similar to AA sequence:RefSeq:WP_015247045.1
cytochrome c oxidase subunit 3 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015247044.1
cytochrome C oxidase subunit IV family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012237396.1
COORDINATES: similar to AA sequence:RefSeq:WP_015245848.1
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF012298.2
COORDINATES: similar to AA sequence:RefSeq:WP_011826499.1
COORDINATES: similar to AA sequence:RefSeq:WP_006173029.1
COORDINATES: similar to AA sequence:RefSeq:WP_006173030.1
methyltransferase domain-containing protein
COORDINATES: protein motif:HMM:NF014567.2
hybrid sensor histidine kinase/response regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015180355.1
COORDINATES: protein motif:HMM:TIGR00229.1
GO:0005515 - protein binding [Evidence IEA]
PAS domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_020471805.1
sigma-54 dependent transcriptional regulator
COORDINATES: protein motif:HMM:NF013740.2
COORDINATES: protein motif:HMM:NF012780.2
COORDINATES: protein motif:HMM:NF018980.2
COORDINATES: protein motif:HMM:NF018449.2
COORDINATES: similar to AA sequence:RefSeq:WP_007333524.1
GO:0004672 - protein kinase activity [Evidence IEA]
GO:0006468 - protein phosphorylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010585868.1
COORDINATES: similar to AA sequence:RefSeq:WP_008670725.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012695875.1
COORDINATES: protein motif:HMM:NF033579.1
GO:0004803 - transposase activity [Evidence IEA]
type II toxin-antitoxin system VapC family toxin