Leisingera aquaemixtae strain R2C4 plasmid unnamed5.
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\nCP041163.1.\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##
COORDINATES: similar to AA sequence:RefSeq:WP_017065560.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008558528.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558554.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296341.1
PLD nuclease N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558558.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558564.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558549.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558521.1
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558614.1
GO:0004673 - protein histidine kinase activity [Evidence IEA]
HWE histidine kinase domain-containing 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_008558531.1
COORDINATES: similar to AA sequence:RefSeq:WP_005977274.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296515.1
protein phosphatase 2C domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296516.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296517.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558523.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558595.1
COORDINATES: similar to AA sequence:RefSeq:WP_013220272.1
GO:0016209 - antioxidant activity [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558524.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_020042125.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558610.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_005657735.1
GO:0018826 - methionine gamma-lyase activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0019346 - transsulfuration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558600.1
GO:0008661 - 1-deoxy-D-xylulose-5-phosphate synthase activity [Evidence IEA]
GO:0016114 - terpenoid biosynthetic process [Evidence IEA]
1-deoxy-D-xylulose-5-phosphate synthase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011539379.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558604.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558612.1
carboxyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558585.1
GO:0005886 - plasma membrane [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0015556 - C4-dicarboxylate transmembrane transporter activity [Evidence IEA]
GO:0015740 - C4-dicarboxylate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558570.1
COORDINATES: similar to AA sequence:RefSeq:WP_019297917.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019297918.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019296466.1
COORDINATES: similar to AA sequence:RefSeq:WP_011339645.1
frameshifted; incomplete; too short partial abutting assembly gap; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.