Paraburkholderia dioscoreae strain Msb3 plasmid pI.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Paraburkholderia.
Submitted (18-AUG-2019) UNIVERSITY OF VIENNA, Department of Ecogenomics and Systems Biology, UZA I, Althanstrasse 14, 1090 Vienna, Austria
REFSEQ INFORMATION: The reference sequence is identical to\nLR699555.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/12/2022 08:12:22\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 7,542\nCDSs (total) :: 7,456\nGenes (coding) :: 7,321\nCDSs (with protein) :: 7,321\nGenes (RNA) :: 86\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 64\nncRNAs :: 4\nPseudo Genes (total) :: 135\nCDSs (without protein) :: 135\nPseudo Genes (ambiguous residues) :: 0 of 135\nPseudo Genes (frameshifted) :: 55 of 135\nPseudo Genes (incomplete) :: 108 of 135\nPseudo Genes (internal stop) :: 11 of 135\nPseudo Genes (multiple problems) :: 34 of 135\n##Genome-Annotation-Data-END##
type strain of Paraburkholderia dioscoreae
COORDINATES: similar to AA sequence:RefSeq:WP_010163277.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
DNA starvation/stationary phase protection protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_006046832.1
PLP-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014900233.1
COORDINATES: similar to AA sequence:RefSeq:WP_008917785.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007744855.1
COORDINATES: similar to AA sequence:RefSeq:WP_012364755.1
COORDINATES: similar to AA sequence:RefSeq:WP_006046847.1
GO:0051782 - negative regulation of cell division [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
translesion DNA synthesis-associated protein ImuA
COORDINATES: similar to AA sequence:RefSeq:WP_012406112.1
COORDINATES: similar to AA sequence:RefSeq:WP_013691068.1
COORDINATES: similar to AA sequence:RefSeq:WP_006052952.1
arsenic resistance N-acetyltransferase ArsN2
COORDINATES: similar to AA sequence:RefSeq:WP_014192571.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006052954.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006052955.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_007187130.1
ArsI/CadI family heavy metal resistance metalloenzyme
COORDINATES: similar to AA sequence:RefSeq:WP_020703848.1
COORDINATES: similar to AA sequence:RefSeq:WP_009522421.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0000156 - phosphorelay response regulator activity [Evidence IEA]
GO:0006796 - phosphate-containing compound metabolic process [Evidence IEA]; GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
phosphate regulon transcriptional regulator PhoB
COORDINATES: similar to AA sequence:RefSeq:WP_018419032.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0051049 - regulation of transport [Evidence IEA]
phosphate signaling complex protein PhoU
COORDINATES: similar to AA sequence:RefSeq:WP_009857160.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0009898 - cytoplasmic side of plasma membrane [Evidence IEA]
GO:0005524 - ATP binding [Evidence IEA]; GO:0015415 - ATPase-coupled phosphate ion transmembrane transporter activity [Evidence IEA]
phosphate ABC transporter ATP-binding protein PstB
COORDINATES: similar to AA sequence:RefSeq:WP_003547326.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015415 - ATPase-coupled phosphate ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006221935.1
phosphate ABC transporter permease subunit PstC
COORDINATES: protein motif:HMM:NF008171.0
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0009897 - external side of plasma membrane [Evidence IEA]; GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0015415 - ATPase-coupled phosphate ion transmembrane transporter activity [Evidence IEA]; GO:0042301 - phosphate ion binding [Evidence IEA]
phosphate ABC transporter substrate-binding protein PstS
COORDINATES: similar to AA sequence:RefSeq:WP_006052956.1
COORDINATES: similar to AA sequence:RefSeq:WP_006052957.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018419040.1
COORDINATES: similar to AA sequence:RefSeq:WP_019450423.1
sigma-54 dependent transcriptional regulator
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_019450425.1
PhnD/SsuA/transferrin family substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_013124475.1
GO:0050611 - arsenate reductase (azurin) activity [Evidence IEA]
arsenate reductase (azurin) small subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019450427.1
arsenate reductase (azurin) large subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009522101.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]
GO:0006777 - Mo-molybdopterin cofactor biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014192528.1
GO:0008794 - arsenate reductase (glutaredoxin) activity [Evidence IEA]
This arsenate reductase requires both glutathione and glutaredoxin to convert arsenate to arsenite, after which the efflux transporter formed by ArsA and ArsB can extrude the arsenite from the cell, providing resistance; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017337838.1
ArsO family NAD(P)H-dependent flavin-containing monooxygenase
COORDINATES: similar to AA sequence:RefSeq:WP_007182646.1
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:NF022440.2
COORDINATES: protein motif:HMM:NF016362.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012211053.1
COORDINATES: similar to AA sequence:RefSeq:WP_012430939.1
COORDINATES: similar to AA sequence:RefSeq:WP_014253099.1
COORDINATES: protein motif:HMM:NF039499.1
COORDINATES: similar to AA sequence:RefSeq:WP_006749404.1
COORDINATES: similar to AA sequence:RefSeq:WP_009523606.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211054.1
COORDINATES: similar to AA sequence:RefSeq:WP_012431027.1
COORDINATES: similar to AA sequence:RefSeq:WP_015876335.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875638.1
COORDINATES: similar to AA sequence:RefSeq:WP_009242017.1
COORDINATES: similar to AA sequence:RefSeq:WP_012434765.1
COORDINATES: similar to AA sequence:RefSeq:WP_001515542.1
COORDINATES: similar to AA sequence:RefSeq:WP_017772819.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211050.1
COORDINATES: similar to AA sequence:RefSeq:WP_012464967.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211044.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211043.1
COORDINATES: similar to AA sequence:RefSeq:WP_018431518.1
COORDINATES: similar to AA sequence:RefSeq:WP_012464968.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012211040.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211039.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211038.1
TrbC family F-type conjugative pilus assembly protein
COORDINATES: similar to AA sequence:RefSeq:WP_012211037.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211036.1
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: similar to AA sequence:RefSeq:WP_012464969.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_012211034.1
COORDINATES: protein motif:HMM:NF021212.2
COORDINATES: similar to AA sequence:RefSeq:WP_009688617.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211032.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611695.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF021981.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012211030.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211029.1
COORDINATES: similar to AA sequence:RefSeq:WP_009688625.1
helix-turn-helix domain containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012464970.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211026.1
COORDINATES: similar to AA sequence:RefSeq:WP_012464971.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211024.1
COORDINATES: protein motif:HMM:NF009018.0
COORDINATES: similar to AA sequence:RefSeq:WP_012464974.1
COORDINATES: similar to AA sequence:RefSeq:WP_009687089.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012211014.1
COORDINATES: similar to AA sequence:RefSeq:WP_009687084.1
COORDINATES: similar to AA sequence:RefSeq:WP_006488616.1
COORDINATES: similar to AA sequence:RefSeq:WP_012430987.1
COORDINATES: similar to AA sequence:RefSeq:WP_013436684.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211012.1
phospholipase D-like domain-containing protein
COORDINATES: protein motif:HMM:NF039512.1
COORDINATES: similar to AA sequence:RefSeq:WP_009695822.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011695089.1
GO:0019867 - outer membrane [Evidence IEA]
outer membrane protein assembly factor BamE
COORDINATES: similar to AA sequence:RefSeq:WP_009242147.1
COORDINATES: similar to AA sequence:RefSeq:WP_009695823.1
COORDINATES: similar to AA sequence:RefSeq:WP_006473037.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798648.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211010.1
COORDINATES: protein motif:HMM:NF037521.2
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013041739.1
COORDINATES: similar to AA sequence:RefSeq:WP_011488753.1
COORDINATES: similar to AA sequence:RefSeq:WP_010112230.1
COORDINATES: similar to AA sequence:RefSeq:WP_010112228.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211066.1
COORDINATES: protein motif:HMM:NF014273.2
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_012464987.1
COORDINATES: similar to AA sequence:RefSeq:WP_010108657.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014253284.1
COORDINATES: similar to AA sequence:RefSeq:WP_006998139.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008649475.1
COORDINATES: similar to AA sequence:RefSeq:WP_009692921.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012406104.1
COORDINATES: similar to AA sequence:RefSeq:WP_005375215.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011745156.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959084.1
Mu transposase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006482415.1
COORDINATES: similar to AA sequence:RefSeq:WP_011880225.1
COORDINATES: similar to AA sequence:RefSeq:WP_009927597.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00027.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016038421.1
GO:0044423 - virion component [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0016032 - viral process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016038422.1
COORDINATES: similar to AA sequence:RefSeq:WP_000857494.1
LysC is an Rz1-like component of a phage lytic system, substantially overlapping although not fully embedded in the gene for the Rz-like LysB component; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016038424.1
The gene for this Rz-like phage lysis system protein may overlap extensively with the gene for the other spanin subunit, the Rz1-like protein in the outer membrane; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012433358.1
COORDINATES: similar to AA sequence:RefSeq:WP_020071076.1
COORDINATES: similar to AA sequence:RefSeq:WP_020071075.1
COORDINATES: similar to AA sequence:RefSeq:WP_012406066.1
COORDINATES: similar to AA sequence:RefSeq:WP_086557970.1
COORDINATES: similar to AA sequence:RefSeq:WP_008348840.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [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.
COORDINATES: similar to AA sequence:RefSeq:WP_012406065.1
COORDINATES: similar to AA sequence:RefSeq:WP_008353227.1
COORDINATES: similar to AA sequence:RefSeq:WP_012427355.1
COORDINATES: similar to AA sequence:RefSeq:WP_012427356.1
COORDINATES: similar to AA sequence:RefSeq:WP_012406061.1
ATP-dependent Clp protease ATP-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012427358.1
UBP-type zinc finger domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020071065.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012406058.1
COORDINATES: similar to AA sequence:RefSeq:WP_012406056.1
phosphate-starvation-inducible PsiE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011545436.1
frameshifted; 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_020069220.1
carboxypeptidase regulatory-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012216291.1
COORDINATES: similar to AA sequence:RefSeq:WP_017233882.1
COORDINATES: similar to AA sequence:RefSeq:WP_009891971.1
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_012427351.1
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_012427352.1
COORDINATES: similar to AA sequence:RefSeq:WP_006023728.1
COORDINATES: similar to AA sequence:RefSeq:WP_009239872.1
type 1 glutamine amidotransferase domain-containing protein