Leisingera aquaemixtae strain R2C4 plasmid unnamed1, 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\nCP041156.1.\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: similar to AA sequence:RefSeq:WP_008558344.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008558172.1
GO:0016301 - kinase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system death-on-curing family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_008208328.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296976.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558262.1
GO:0016829 - lyase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558290.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558337.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019296967.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558176.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558377.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558203.1
COORDINATES: similar to AA sequence:RefSeq:WP_009175392.1
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_008558269.1
COORDINATES: similar to AA sequence:RefSeq:WP_005694648.1
4-oxalocrotonate tautomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008205372.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296858.1
GO:0005515 - protein binding [Evidence IEA]
GO:0006749 - glutathione metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558322.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296951.1
GO:0016655 - oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor [Evidence IEA]
GO:0006814 - sodium ion transport [Evidence IEA]
NADH:ubiquinone reductase (Na(+)-transporting) subunit F
COORDINATES: similar to AA sequence:RefSeq:NP_251685.1
NADH:ubiquinone reductase (Na(+)-transporting) subunit E
COORDINATES: similar to AA sequence:RefSeq:WP_008208348.1
NADH:ubiquinone reductase (Na(+)-transporting) subunit D
COORDINATES: similar to AA sequence:RefSeq:WP_008558367.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0016655 - oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor [Evidence IEA]
Na(+)-translocating NADH-quinone reductase subunit C
COORDINATES: similar to AA sequence:RefSeq:WP_019296947.1
GO:0022904 - respiratory electron transport chain [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
NADH:ubiquinone reductase (Na(+)-transporting) subunit B
COORDINATES: similar to AA sequence:RefSeq:WP_005977016.1
Na(+)-translocating NADH-quinone reductase subunit A
COORDINATES: similar to AA sequence:RefSeq:WP_012690561.1
mandelate racemase/muconate lactonizing enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296944.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296943.1
COORDINATES: similar to AA sequence:RefSeq:WP_014881768.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296941.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_019296940.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_008558187.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
saccharopine dehydrogenase NADP-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005854399.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294363.1
COORDINATES: protein motif:HMM:NF040974.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558227.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558277.1
GO:0050480 - imidazolonepropionase activity [Evidence IEA]
GO:0006548 - histidine catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019294367.1
GO:0004397 - histidine ammonia-lyase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005641588.1
GO:0050129 - N-formylglutamate deformylase activity [Evidence IEA]
GO:0019557 - histidine catabolic process to glutamate and formate [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005980334.1
GO:0016153 - urocanate hydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558298.1
GO:0008081 - phosphoric diester hydrolase activity [Evidence IEA]
GO:0006629 - lipid metabolic process [Evidence IEA]
glycerophosphodiester phosphodiesterase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011538197.1
sn-glycerol-3-phosphate import ATP-binding protein UgpC
COORDINATES: similar to AA sequence:RefSeq:WP_011046005.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015794 - glycerol-3-phosphate transmembrane transport [Evidence IEA]
sn-glycerol-3-phosphate ABC transporter permease UgpE
COORDINATES: similar to AA sequence:RefSeq:WP_011538195.1
sn-glycerol-3-phosphate ABC transporter permease UgpA
COORDINATES: similar to AA sequence:RefSeq:WP_020284666.1
sn-glycerol-3-phosphate ABC transporter substrate-binding protein UgpB
COORDINATES: similar to AA sequence:RefSeq:WP_008558299.1
COORDINATES: similar to AA sequence:RefSeq:WP_009810503.1
COORDINATES: similar to AA sequence:RefSeq:WP_010967417.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558308.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558162.1
COORDINATES: similar to AA sequence:RefSeq:WP_006414450.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_007702055.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558173.1
COORDINATES: similar to AA sequence:RefSeq:WP_011049359.1
COORDINATES: similar to AA sequence:RefSeq:WP_009831017.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558170.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558291.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558287.1
GO:0008777 - acetylornithine deacetylase activity [Evidence IEA]
GO:0006592 - ornithine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558218.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558260.1
COORDINATES: similar to AA sequence:RefSeq:WP_008563415.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558265.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_008558296.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558168.1
COORDINATES: similar to AA sequence:RefSeq:WP_014285563.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0030976 - thiamine pyrophosphate binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019297423.1
FMN-binding glutamate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013946755.1
COORDINATES: similar to AA sequence:RefSeq:WP_008203754.1
COORDINATES: similar to AA sequence:RefSeq:WP_008758406.1
GO:0008783 - agmatinase activity [Evidence IEA]
GO:0008295 - spermidine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558336.1
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010432311.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558328.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294607.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011566868.1
branched-chain amino acid ABC transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_008558329.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558239.1
COORDINATES: similar to AA sequence:RefSeq:WP_008560709.1
COORDINATES: similar to AA sequence:RefSeq:WP_014880821.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0015343 - siderophore-iron transmembrane transporter activity [Evidence IEA]
GO:0015891 - siderophore transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014880820.1
GO:0015291 - secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014875498.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558207.1
COORDINATES: similar to AA sequence:RefSeq:WP_014875496.1
MotA/TolQ/ExbB proton channel family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014875495.1
COORDINATES: similar to AA sequence:RefSeq:WP_014880816.1
COORDINATES: similar to AA sequence:RefSeq:WP_014880815.1
iron chelate uptake ABC transporter family permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008558180.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558165.1
COORDINATES: similar to AA sequence:RefSeq:WP_011540089.1
GO:0004148 - dihydrolipoyl dehydrogenase activity [Evidence IEA]
GO:0045454 - cell redox homeostasis [Evidence IEA]; GO:0051068 - dihydrolipoamide metabolic process [Evidence IEA]; GO:0006096 - glycolytic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019296397.1
dihydrolipoamide acetyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296398.1
alpha-ketoacid dehydrogenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_008558193.1
3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_011540094.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008558303.1
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]
TetR family transcriptional regulator C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558185.1
GO:0070967 - coenzyme F420 binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0008150 - biological_process [Evidence IEA]
TIGR03842 family LLM class F420-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_008546587.1
GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558302.1
GO:0043773 - coenzyme F420-0 gamma-glutamyl ligase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558253.1
GO:0043814 - phospholactate guanylyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558372.1
GO:0043743 - LPPG:FO 2-phospho-L-lactate transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009176192.1
5-amino-6-(D-ribitylamino)uracil--L-tyrosine 4-hydroxyphenyl transferase CofH
COORDINATES: similar to AA sequence:RefSeq:WP_009177101.1
7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase CofG
COORDINATES: similar to AA sequence:RefSeq:WP_010442809.1
GO:0008746 - NAD(P)+ transhydrogenase activity [Evidence IEA]
GO:1902600 - proton transmembrane transport [Evidence IEA]
Re/Si-specific NAD(P)(+) transhydrogenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_008558235.1
NAD(P)(+) transhydrogenase (Re/Si-specific) subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_008558195.1
aspartate aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296441.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558323.1
GO:0004157 - dihydropyrimidinase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008546312.1
NCS1 family nucleobase:cation symporter-1
COORDINATES: similar to AA sequence:RefSeq:WP_005622431.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558313.1
COORDINATES: similar to AA sequence:RefSeq:WP_019296356.1
sulfopyruvate decarboxylase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_009158656.1
sulfopyruvate decarboxylase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_008558216.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558306.1
alcohol dehydrogenase catalytic domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296360.1
COORDINATES: similar to AA sequence:RefSeq:WP_008205397.1
GO:0004399 - histidinol dehydrogenase activity [Evidence IEA]
GO:0000105 - histidine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011046349.1
COORDINATES: similar to AA sequence:RefSeq:WP_010441971.1
COORDINATES: similar to AA sequence:RefSeq:WP_008205400.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019296365.1
COORDINATES: similar to AA sequence:RefSeq:WP_014873895.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008558240.1
COORDINATES: similar to AA sequence:RefSeq:WP_014503567.1
proton-conducting transporter membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008558190.1
COORDINATES: similar to AA sequence:RefSeq:WP_008887564.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0003994 - aconitate hydratase activity [Evidence IEA]
GO:0006099 - tricarboxylic acid cycle [Evidence IEA]
bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase
COORDINATES: similar to AA sequence:RefSeq:WP_008558294.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558258.1
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008555273.1
HAMP domain-containing methyl-accepting chemotaxis protein
COORDINATES: similar to AA sequence:RefSeq:WP_019294601.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558326.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558339.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558281.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558220.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558186.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558245.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558226.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294593.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558256.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294591.1
COORDINATES: similar to AA sequence:RefSeq:WP_014881801.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558255.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558205.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014881246.1
COORDINATES: protein motif:HMM:NF012422.2
COORDINATES: similar to AA sequence:RefSeq:WP_008558181.1
COORDINATES: similar to AA sequence:RefSeq:WP_019297000.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558242.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558320.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016614 - oxidoreductase activity, acting on CH-OH group of donors [Evidence IEA]
GMC family oxidoreductase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558252.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558334.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0019346 - transsulfuration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558292.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558300.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558279.1
TAXI family TRAP transporter solute-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008558331.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558284.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558259.1
aspartate/glutamate racemase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008558321.1
aminotransferase class V-fold PLP-dependent enzyme