Thiomonas intermedia strain ATCC 15466 plasmid pXI1, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Thiomonas.
Complete genome sequence of Thiomonas intermedia ATCC 15466, a facultative autotroph sulfide-oxidizing bacteria
Submitted (08-MAR-2017) Center for Bioengineering and Biotechnology, China University of Petroleum, No. 66 Changjiang West Road, Qingdao, Shandong 266580, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP020047.1.\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 :: GS De Novo Assembler v. Pacbio RSII\n DEC-2016\nGenome Coverage :: 372.0x\nSequencing Technology :: PacBio; Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/04/2023 02:33:43\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,129\nCDSs (total) :: 3,080\nGenes (coding) :: 3,049\nCDSs (with protein) :: 3,049\nGenes (RNA) :: 49\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 43\nncRNAs :: 3\nPseudo Genes (total) :: 31\nCDSs (without protein) :: 31\nPseudo Genes (ambiguous residues) :: 0 of 31\nPseudo Genes (frameshifted) :: 10 of 31\nPseudo Genes (incomplete) :: 23 of 31\nPseudo Genes (internal stop) :: 2 of 31\nPseudo Genes (multiple problems) :: 4 of 31\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_015042061.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007162527.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_019939899.1
COORDINATES: similar to AA sequence:RefSeq:WP_012329474.1
COORDINATES: similar to AA sequence:RefSeq:WP_011630671.1
COORDINATES: similar to AA sequence:RefSeq:WP_010363003.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010363005.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]; GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008508773.1
COORDINATES: similar to AA sequence:RefSeq:WP_007968798.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_002966513.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_012329487.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003480886.1
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: similar to AA sequence:RefSeq:WP_015462652.1
COORDINATES: similar to AA sequence:RefSeq:WP_010363025.1
COORDINATES: similar to AA sequence:RefSeq:WP_010363027.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_006210408.1
COORDINATES: similar to AA sequence:RefSeq:WP_002970470.1
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012329495.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: protein motif:HMM:NF037106.2
COORDINATES: similar to AA sequence:RefSeq:WP_011255138.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_010107976.1
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008008260.1
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF014678.2
COORDINATES: similar to AA sequence:RefSeq:WP_015462641.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_004644782.1
COORDINATES: similar to AA sequence:RefSeq:WP_007968825.1
COORDINATES: similar to AA sequence:RefSeq:WP_007731370.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005321133.1
COORDINATES: similar to AA sequence:RefSeq:WP_012329509.1
COORDINATES: similar to AA sequence:RefSeq:WP_015462632.1
COORDINATES: protein motif:HMM:NF019997.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
ArdC-like ssDNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018574824.1
COORDINATES: similar to AA sequence:RefSeq:WP_012329465.1
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: similar to AA sequence:RefSeq:WP_011578684.1