Leisingera aquaemixtae strain R2C4 plasmid unnamed2, 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\nCP041157.1.\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+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
adenylate/guanylate cyclase domain-containing protein
COORDINATES: protein motif:HMM:NF014713.2
GO:0017004 - cytochrome complex assembly [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015216.2
GO:0018836 - alkylmercury lyase activity [Evidence IEA]
GO:0046413 - organomercury catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007253827.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807474.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009819805.1
mercury resistance system transport protein MerF
COORDINATES: similar to AA sequence:RefSeq:WP_009824453.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824452.1
mercuric transporter MerT family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005611030.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010438581.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503854.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187176.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803450.1
COORDINATES: similar to AA sequence:RefSeq:WP_008889351.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803465.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807977.1
COORDINATES: similar to AA sequence:RefSeq:WP_008889345.1
COORDINATES: similar to AA sequence:RefSeq:WP_020038273.1
COORDINATES: similar to AA sequence:RefSeq:WP_018001721.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803474.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803475.1
COORDINATES: similar to AA sequence:RefSeq:WP_018303599.1
COORDINATES: similar to AA sequence:RefSeq:WP_005645237.1
COORDINATES: similar to AA sequence:RefSeq:WP_010138184.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0046983 - protein dimerization activity [Evidence IEA]; GO:0046914 - transition metal ion binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
manganese-binding transcriptional regulator MntR
COORDINATES: similar to AA sequence:RefSeq:WP_008188231.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008188307.1
phosphate/phosphite/phosphonate ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008188375.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008188352.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015416 - ABC-type phosphonate transporter activity [Evidence IEA]
GO:0015716 - organic phosphonate transport [Evidence IEA]
phosphonate ABC transporter, permease protein PhnE
COORDINATES: similar to AA sequence:RefSeq:WP_018860470.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009819806.1
frameshifted; 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: similar to AA sequence:RefSeq:WP_005613353.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819821.1
COORDINATES: similar to AA sequence:RefSeq:WP_005848473.1
COORDINATES: similar to AA sequence:RefSeq:WP_011242139.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824506.1
COORDINATES: similar to AA sequence:RefSeq:WP_005613364.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819817.1
COORDINATES: similar to AA sequence:RefSeq:WP_005613368.1
DsbE family thiol:disulfide interchange protein
COORDINATES: similar to AA sequence:RefSeq:WP_009824502.1
COORDINATES: similar to AA sequence:RefSeq:WP_009573584.1
COORDINATES: similar to AA sequence:RefSeq:WP_009805231.1
COORDINATES: similar to AA sequence:RefSeq:WP_012563321.1
COORDINATES: protein motif:HMM:NF024834.2
COORDINATES: protein motif:HMM:TIGR01297.1
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]; GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_008885742.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282828.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807974.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009824416.1
COORDINATES: similar to AA sequence:RefSeq:WP_005613348.1
COORDINATES: similar to AA sequence:RefSeq:WP_009810509.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611844.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008759190.1
COORDINATES: similar to AA sequence:RefSeq:WP_011047988.1
COORDINATES: similar to AA sequence:RefSeq:WP_005608770.1
COORDINATES: similar to AA sequence:RefSeq:WP_014332409.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976042.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_009824531.1
COORDINATES: similar to AA sequence:RefSeq:WP_008838340.1
COORDINATES: similar to AA sequence:RefSeq:WP_011945710.1
COORDINATES: similar to AA sequence:RefSeq:WP_008577070.1
COORDINATES: similar to AA sequence:RefSeq:WP_007679836.1
COORDINATES: similar to AA sequence:RefSeq:WP_011427422.1
COORDINATES: protein motif:HMM:NF024853.2
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: protein motif:HMM:NF018381.2
COORDINATES: protein motif:HMM:NF025105.2
COORDINATES: similar to AA sequence:RefSeq:WP_011331485.1
COORDINATES: protein motif:HMM:NF018666.2
COORDINATES: similar to AA sequence:RefSeq:WP_011331483.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_010890975.1
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_011331481.1
type-F conjugative transfer system protein TraW
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: similar to AA sequence:RefSeq:WP_011331477.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331476.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331475.1
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: protein motif:HMM:NF017152.2
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: protein motif:HMM:TIGR02762.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_011331471.1
COORDINATES: similar to AA sequence:RefSeq:WP_007340361.1
COORDINATES: protein motif:HMM:NF023568.2
COORDINATES: similar to AA sequence:RefSeq:WP_008282218.1
outer membrane protein transport protein
COORDINATES: similar to AA sequence:RefSeq:WP_002722818.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF037096.2
COORDINATES: similar to AA sequence:RefSeq:WP_006843757.1
COORDINATES: similar to AA sequence:RefSeq:WP_012115593.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120564.1
COORDINATES: similar to AA sequence:RefSeq:WP_009175406.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_015497607.1
COORDINATES: similar to AA sequence:RefSeq:WP_011579025.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316021.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008759335.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_005634757.1
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: similar to AA sequence:RefSeq:WP_009175352.1
type IV secretion system DNA-binding domain-containing protein
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013677543.1
COORDINATES: similar to AA sequence:RefSeq:WP_017599885.1
rhodanese-like domain-containing protein