Leisingera caerulea strain S122 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Leisingera.
Submitted (10-AUG-2021) College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao, Shandong 266003, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP081071.1.\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 :: SMART Link v. v5.0.1\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: PacBio Sequel; Illumina NovaSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/13/2022 09:03:46\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,415\nCDSs (total) :: 4,342\nGenes (coding) :: 4,307\nCDSs (with protein) :: 4,307\nGenes (RNA) :: 73\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 58\nncRNAs :: 3\nPseudo Genes (total) :: 35\nCDSs (without protein) :: 35\nPseudo Genes (ambiguous residues) :: 0 of 35\nPseudo Genes (frameshifted) :: 13 of 35\nPseudo Genes (incomplete) :: 31 of 35\nPseudo Genes (internal stop) :: 3 of 35\nPseudo Genes (multiple problems) :: 11 of 35\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+.
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: protein motif:HMM:NF018666.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011331485.1
COORDINATES: protein motif:HMM:NF025105.2
COORDINATES: protein motif:HMM:NF018381.2
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF024853.2
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005848490.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011427422.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815135.1
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF022440.2
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_008758869.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF033542.1
COORDINATES: similar to AA sequence:RefSeq:WP_006939164.1
COORDINATES: similar to AA sequence:RefSeq:WP_007009849.1
chloramphenicol phosphotransferase CPT family protein
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: similar to AA sequence:RefSeq:WP_008757179.1
COORDINATES: similar to AA sequence:RefSeq:WP_014889431.1
COORDINATES: protein motif:HMM:NF024952.2
COORDINATES: similar to AA sequence:RefSeq:WP_008759190.1
COORDINATES: similar to AA sequence:RefSeq:WP_009504227.1
COORDINATES: similar to AA sequence:RefSeq:WP_005608770.1
COORDINATES: protein motif:HMM:NF025713.2
COORDINATES: protein motif:HMM:NF019371.2
COORDINATES: protein motif:HMM:TIGR04474.1
COORDINATES: similar to AA sequence:RefSeq:WP_008033147.1
COORDINATES: similar to AA sequence:RefSeq:WP_007206460.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0036211 - protein modification process [Evidence IEA]
30S ribosomal protein S6--L-glutamate ligase
COORDINATES: similar to AA sequence:RefSeq:WP_010442286.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0003674 - molecular_function [Evidence IEA]
GO:0045861 - negative regulation of proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005631479.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442284.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442283.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442282.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442281.1
COORDINATES: similar to AA sequence:RefSeq:WP_011930503.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442278.1
COORDINATES: similar to AA sequence:RefSeq:WP_008556092.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442276.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_010442275.1
COORDINATES: similar to AA sequence:RefSeq:WP_008561202.1
COORDINATES: similar to AA sequence:RefSeq:WP_005864029.1
COORDINATES: similar to AA sequence:RefSeq:WP_009175352.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:TIGR02686.1
COORDINATES: similar to AA sequence:RefSeq:WP_014873484.1
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006470801.1
putative addiction module antidote protein
COORDINATES: similar to AA sequence:RefSeq:WP_008030919.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011579025.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497607.1
COORDINATES: similar to AA sequence:RefSeq:WP_009175406.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_007120564.1
COORDINATES: similar to AA sequence:RefSeq:WP_012115593.1
COORDINATES: similar to AA sequence:RefSeq:WP_006843757.1
COORDINATES: protein motif:HMM:NF012307.2
COORDINATES: similar to AA sequence:RefSeq:WP_008232175.1
COORDINATES: similar to AA sequence:RefSeq:WP_008884293.1
COORDINATES: similar to AA sequence:RefSeq:WP_017927570.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005887 - integral component of 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_008282839.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008188307.1
phosphate/phosphite/phosphonate ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008188231.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820125.1
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: protein motif:HMM:NF024116.2
COORDINATES: similar to AA sequence:RefSeq:WP_013824176.1
COORDINATES: protein motif:HMM:NF027890.2
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF024375.2
COORDINATES: protein motif:HMM:NF019265.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF021604.2
COORDINATES: similar to AA sequence:RefSeq:WP_009804918.1
COORDINATES: protein motif:HMM:NF013354.2
COORDINATES: protein motif:HMM:NF022135.2
COORDINATES: similar to AA sequence:RefSeq:WP_010234648.1
COORDINATES: protein motif:HMM:NF039631.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815262.1
outer membrane protein transport protein
COORDINATES: similar to AA sequence:RefSeq:WP_008206041.1
COORDINATES: similar to AA sequence:RefSeq:WP_007340361.1
COORDINATES: protein motif:HMM:TIGR02762.1
type IV conjugative transfer system protein TraL
COORDINATES: protein motif:HMM:NF017152.2
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_011331475.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331476.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331477.1
COORDINATES: protein motif:HMM:NF021213.2
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: similar to AA sequence:RefSeq:WP_011331481.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_006949468.1
conjugal transfer pilus assembly protein TraU