Pseudorhodobacter turbinis strain S12M18 plasmid unnamed2, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Pseudorhodobacter.
Pseudorhodobacter turbinis sp. nov., isolated from the gut of the Korean turban shell
Submitted (02-MAY-2019) Department of Biology, Kyung Hee University, 1 Hoegi-dong, Dongdaemun-gu, Seoul 02447, Korea, Republic of
REFSEQ INFORMATION: The reference sequence is identical to\nCP039966.1.\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 :: RS HGAP v. 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 266.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/28/2023 02:45:19\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) :: 4,151\nCDSs (total) :: 4,085\nGenes (coding) :: 3,852\nCDSs (with protein) :: 3,852\nGenes (RNA) :: 66\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 51\nncRNAs :: 3\nPseudo Genes (total) :: 233\nCDSs (without protein) :: 233\nPseudo Genes (ambiguous residues) :: 0 of 233\nPseudo Genes (frameshifted) :: 115 of 233\nPseudo Genes (incomplete) :: 186 of 233\nPseudo Genes (internal stop) :: 58 of 233\nPseudo Genes (multiple problems) :: 105 of 233\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Pseudorhodobacter turbinis
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_011655537.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011655536.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824537.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824538.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611590.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF017524.2
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611178.1
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_076611917.1
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_009157880.1
internal stop; incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013736.2
COORDINATES: similar to AA sequence:RefSeq:WP_003537131.1
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: protein motif:HMM:NF012321.2
COORDINATES: protein motif:HMM:NF024824.2
COORDINATES: similar to AA sequence:RefSeq:WP_013963775.1
COORDINATES: protein motif:HMM:NF018294.2
COORDINATES: similar to AA sequence:RefSeq:WP_013963777.1
COORDINATES: protein motif:HMM:NF014430.2
COORDINATES: protein motif:HMM:NF013698.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007331490.1
COORDINATES: similar to AA sequence:RefSeq:WP_008229928.1
COORDINATES: similar to AA sequence:RefSeq:WP_008229961.1
polysaccharide biosynthesis/export family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011655489.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442181.1
COORDINATES: similar to AA sequence:RefSeq:WP_007427794.1
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
Wzz/FepE/Etk N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF022077.2
CpsD/CapB family tyrosine-protein kinase
COORDINATES: similar to AA sequence:RefSeq:WP_020043108.1
COORDINATES: protein motif:HMM:NF024627.2
LamG-like jellyroll fold domain-containing protein
COORDINATES: protein motif:HMM:TIGR01843.1
GO:0030253 - protein secretion by the type I secretion system [Evidence IEA]
HlyD family type I secretion periplasmic adaptor subunit
COORDINATES: protein motif:HMM:TIGR01842.1
COORDINATES: protein motif:HMM:NF012745.2
right-handed parallel beta-helix repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611844.1
GO:0015074 - DNA integration [Evidence IEA]
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.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004424987.1
toxin-antitoxin system HicB family antitoxin
COORDINATES: protein motif:HMM:NF016060.2
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014808951.1
GO:0019180 - dTDP-4-amino-4,6-dideoxygalactose transaminase activity [Evidence IEA]
GO:0009246 - enterobacterial common antigen biosynthetic process [Evidence IEA]
dTDP-4-amino-4,6-dideoxygalactose transaminase
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_012606173.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611353.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024832.2
COORDINATES: protein motif:HMM:NF013077.2
COORDINATES: similar to AA sequence:RefSeq:WP_012187415.1
polysaccharide pyruvyl transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005850657.1
COORDINATES: similar to AA sequence:RefSeq:WP_013818525.1
COORDINATES: protein motif:HMM:NF016763.2
COORDINATES: protein motif:HMM:TIGR03370.1
VPLPA-CTERM sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009506822.1
GO:0004197 - cysteine-type endopeptidase activity [Evidence IEA]
GO:0043687 - post-translational protein modification [Evidence IEA]
COORDINATES: protein motif:HMM:NF013827.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
rhomboid family intramembrane serine protease
COORDINATES: similar to AA sequence:RefSeq:WP_009159998.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020041617.1