Leisingera aquaemixtae strain R2C4 plasmid unnamed4, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Leisingera.
Complete Genome Sequence of Leisingera sp. R2C4 Isolated from the Self-Regenerating Biocathode Consortium
Submitted (18-JUN-2019) NCBI, Naval Research Lab DC, 4555 Overlook Ave SW, Washington, DC 20375, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP041158.1.\nBacteria and source DNA available from Sarah Glaven, 4555 Overlook\nAve SW, Washington, DC, 20375, USA.\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 :: HGAP v. HGAP.2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 70.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 01:39:34\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) :: 4,246\nCDSs (total) :: 4,174\nGenes (coding) :: 4,133\nCDSs (with protein) :: 4,133\nGenes (RNA) :: 72\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 57\nncRNAs :: 3\nPseudo Genes (total) :: 41\nCDSs (without protein) :: 41\nPseudo Genes (ambiguous residues) :: 0 of 41\nPseudo Genes (frameshifted) :: 23 of 41\nPseudo Genes (incomplete) :: 22 of 41\nPseudo Genes (internal stop) :: 4 of 41\nPseudo Genes (multiple problems) :: 8 of 41\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0045250 - cytosolic pyruvate dehydrogenase complex [Evidence IEA]
GO:0004739 - pyruvate dehydrogenase (acetyl-transferring) activity [Evidence IEA]
GO:0006086 - acetyl-CoA biosynthetic process from pyruvate [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_011771831.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008558642.1
GO:0015114 - phosphate ion transmembrane transporter activity [Evidence IEA]; GO:0005436 - sodium:phosphate symporter activity [Evidence IEA]
GO:0035435 - phosphate ion transmembrane transport [Evidence IEA]; GO:0044341 - sodium-dependent phosphate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558682.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF022615.2
COORDINATES: protein motif:HMM:NF021119.2
spore germination protein GerW family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012520438.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008986 - pyruvate, water dikinase activity [Evidence IEA]; GO:0016772 - transferase activity, transferring phosphorus-containing groups [Evidence IEA]
GO:0016310 - phosphorylation [Evidence IEA]; GO:0006090 - pyruvate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011337406.1
1-phosphofructokinase family hexose kinase
COORDINATES: similar to AA sequence:RefSeq:WP_008558681.1
COORDINATES: similar to AA sequence:RefSeq:WP_007816868.1
COORDINATES: similar to AA sequence:RefSeq:WP_017244946.1
zinc-dependent alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558647.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558629.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558668.1
DnaJ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012187363.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815512.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558667.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120057.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
putative DNA modification/repair radical SAM protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558656.1
This protein belongs to the uracil DNA glycosylase superfamily, members of which act in excision repair of DNA. However, it belongs more specifically to UdgX branch, whose founding member was found to bind uracil in DNA (where it does not belong), without cleaving it, appears to promote DNA repair by a pathway involving RecA, rather than base excision; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008558677.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558650.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558635.1
type II toxin-antitoxin system HipA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_008558639.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558678.1
COORDINATES: protein motif:HMM:NF025716.2
COORDINATES: similar to AA sequence:RefSeq:WP_008558648.1
COORDINATES: similar to AA sequence:RefSeq:WP_012356803.1
dihydrolipoamide acetyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018272363.1
alpha-ketoacid dehydrogenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_013651828.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558673.1
bifunctional aminoglycoside phosphotransferase/ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296415.1
COORDINATES: similar to AA sequence:RefSeq:WP_010443222.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558633.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]; GO:0016020 - membrane [Evidence IEA]
GO:0005524 - ATP binding [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
ribosome-associated ATPase/putative transporter RbbA
COORDINATES: similar to AA sequence:RefSeq:WP_008558659.1
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013344323.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558641.1
COORDINATES: protein motif:HMM:NF012791.2
COORDINATES: similar to AA sequence:RefSeq:WP_008558649.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558672.1
GO:0015116 - sulfate transmembrane transporter activity [Evidence IEA]
GO:0008272 - sulfate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558646.1
COORDINATES: protein motif:HMM:NF037360.2
COORDINATES: similar to AA sequence:RefSeq:WP_010961510.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558638.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008558663.1
COORDINATES: protein motif:HMM:NF012241.2
COORDINATES: similar to AA sequence:RefSeq:WP_008558664.1
COORDINATES: protein motif:HMM:NF013832.2
COORDINATES: similar to AA sequence:RefSeq:WP_008558634.1
COORDINATES: similar to AA sequence:RefSeq:WP_009570479.1
COORDINATES: protein motif:HMM:NF012424.2
GO:0016746 - acyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012584.2
transketolase C-terminal domain-containing protein