Pseudooceanicola algae strain Lw-13e plasmid p202, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae; Pseudooceanicola.
Genome sequence of Rhodobacteraceae bacterium Lw-13e
Submitted (19-AUG-2020) Genomic and Applied Microbiology & Goettingen Genomics Laboratory, Georg-August-University Goettingen, Grisebachstr. 8, Goettingen, Lower Saxony 37077, Germany
Submitted (11-APR-2018) Genomic and Applied Microbiology & Goettingen Genomics Laboratory, Georg-August-University Goettingen, Grisebachstr. 8, Goettingen, Lower Saxony 37077, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP060437.1.\nBacteria and source DNA available from Thorsten Brinkhoff,\nOldenburg.\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##Assembly-Data-START##\nAssembly Method :: Unicycler v. v0.4.7\nCoverage :: 120\nSequencing Technology :: Illumina; Nanopore\n##Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/21/2022 01:45:54\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) :: 3,848\nCDSs (total) :: 3,788\nGenes (coding) :: 3,741\nCDSs (with protein) :: 3,741\nGenes (RNA) :: 60\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 47\nCDSs (without protein) :: 47\nPseudo Genes (ambiguous residues) :: 0 of 47\nPseudo Genes (frameshifted) :: 14 of 47\nPseudo Genes (incomplete) :: 36 of 47\nPseudo Genes (internal stop) :: 9 of 47\nPseudo Genes (multiple problems) :: 11 of 47\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_013961613.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
organoarsenical effux MFS transporter ArsJ
COORDINATES: similar to AA sequence:RefSeq:WP_013961612.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]; GO:0016620 - oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Evidence IEA]
GO:0006006 - glucose metabolic process [Evidence IEA]
ArsJ-associated glyceraldehyde-3-phosphate dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_009803860.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003804065.1
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.
phosphonate ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019954944.1
COORDINATES: similar to AA sequence:RefSeq:WP_019954943.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497387.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497388.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499058.1
COORDINATES: similar to AA sequence:RefSeq:WP_020043278.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499060.1
GO:0016791 - phosphatase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009159614.1
heme NO-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009159813.1
COORDINATES: similar to AA sequence:RefSeq:WP_020041212.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013384736.1
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: protein motif:HMM:NF006056.0
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020312737.1
COORDINATES: similar to AA sequence:RefSeq:WP_007605078.1
COORDINATES: similar to AA sequence:RefSeq:WP_006938933.1
COORDINATES: similar to AA sequence:RefSeq:WP_017710567.1
ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF012706.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_013959843.1
COORDINATES: similar to AA sequence:RefSeq:WP_018326808.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009763492.1
COORDINATES: similar to AA sequence:RefSeq:WP_002720992.1
COORDINATES: similar to AA sequence:RefSeq:WP_011338503.1
COORDINATES: similar to AA sequence:RefSeq:WP_018633404.1
COORDINATES: similar to AA sequence:RefSeq:WP_002720989.1
COORDINATES: similar to AA sequence:RefSeq:WP_007802600.1
pyrroloquinoline quinone-dependent dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_010397763.1
COORDINATES: similar to AA sequence:RefSeq:WP_018051924.1
COORDINATES: similar to AA sequence:RefSeq:WP_007534321.1
3-keto-5-aminohexanoate cleavage protein
COORDINATES: similar to AA sequence:RefSeq:WP_011751288.1
COORDINATES: protein motif:HMM:NF020090.2
COORDINATES: similar to AA sequence:RefSeq:WP_008231005.1
COORDINATES: similar to AA sequence:RefSeq:WP_009811305.1
COORDINATES: similar to AA sequence:RefSeq:WP_006470719.1
COORDINATES: similar to AA sequence:RefSeq:WP_020590959.1
COORDINATES: similar to AA sequence:RefSeq:WP_018697967.1
COORDINATES: similar to AA sequence:RefSeq:WP_010141605.1
GO:0015419 - ABC-type sulfate transporter activity [Evidence IEA]
GO:0008272 - sulfate transport [Evidence IEA]
thiosulfate ABC transporter substrate-binding protein CysP
COORDINATES: similar to AA sequence:RefSeq:WP_013333139.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
sulfate ABC transporter permease subunit CysT
COORDINATES: similar to AA sequence:RefSeq:WP_018065007.1
sulfate ABC transporter permease subunit CysW
COORDINATES: similar to AA sequence:RefSeq:WP_013068243.1
COORDINATES: similar to AA sequence:RefSeq:WP_018916926.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_009574235.1
COORDINATES: similar to AA sequence:RefSeq:WP_008956152.1
COORDINATES: similar to AA sequence:RefSeq:WP_018303364.1
COORDINATES: similar to AA sequence:RefSeq:WP_010137460.1
COORDINATES: protein motif:HMM:NF014477.2
GO:0017013 - protein flavinylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020039389.1
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:WP_018303368.1
NADH:ubiquinone reductase (Na(+)-transporting) subunit E
COORDINATES: similar to AA sequence:RefSeq:WP_004403027.1
NADH:ubiquinone reductase (Na(+)-transporting) subunit D
COORDINATES: similar to AA sequence:RefSeq:WP_018303370.1
COORDINATES: similar to AA sequence:RefSeq:WP_018303371.1
RnfABCDGE type electron transport complex subunit D
COORDINATES: similar to AA sequence:RefSeq:WP_009450724.1
Na(+)-translocating NADH-quinone reductase subunit A
COORDINATES: similar to AA sequence:RefSeq:WP_010139980.1
COORDINATES: similar to AA sequence:RefSeq:WP_007256211.1
COORDINATES: similar to AA sequence:RefSeq:WP_008884296.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008885638.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007254485.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807072.1
COORDINATES: similar to AA sequence:RefSeq:WP_018301494.1
COORDINATES: protein motif:HMM:NF025600.2
COORDINATES: protein motif:HMM:NF024988.2
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020400261.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499556.1
COORDINATES: similar to AA sequence:RefSeq:WP_019954371.1
COORDINATES: similar to AA sequence:RefSeq:WP_019858742.1
COORDINATES: similar to AA sequence:RefSeq:WP_019954373.1
COORDINATES: similar to AA sequence:RefSeq:WP_019954374.1
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011454597.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499550.1
COORDINATES: similar to AA sequence:RefSeq:WP_019954377.1
COORDINATES: similar to AA sequence:RefSeq:WP_012178057.1
COORDINATES: similar to AA sequence:RefSeq:WP_010658603.1
COORDINATES: similar to AA sequence:RefSeq:WP_018700964.1
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012490252.1
GO:0047448 - 5-dehydro-4-deoxyglucarate dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018634260.1
mandelate racemase/muconate lactonizing enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006727875.1
COORDINATES: protein motif:HMM:TIGR02466.1
COORDINATES: similar to AA sequence:RefSeq:WP_011910605.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327480.1
COORDINATES: similar to AA sequence:RefSeq:WP_013368561.1
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: similar to AA sequence:RefSeq:WP_007009265.1
COORDINATES: similar to AA sequence:RefSeq:WP_008597747.1
COORDINATES: similar to AA sequence:RefSeq:WP_007009263.1
TRAP transporter substrate-binding protein DctP
COORDINATES: protein motif:HMM:NF006125.0
GO:0070403 - NAD+ binding [Evidence IEA]; GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012042844.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
NAD/NADP-dependent octopine/nopaline dehydrogenase family protein
COORDINATES: protein motif:HMM:NF013830.2
COORDINATES: protein motif:HMM:NF015682.2
COORDINATES: protein motif:HMM:NF015366.2
tripartite tricarboxylate transporter substrate binding protein
COORDINATES: protein motif:HMM:NF018979.2
tripartite tricarboxylate transporter TctB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009550063.1
tripartite tricarboxylate transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_011665619.1
COORDINATES: similar to AA sequence:RefSeq:WP_002652727.1
COORDINATES: similar to AA sequence:RefSeq:WP_010142238.1
COORDINATES: similar to AA sequence:RefSeq:WP_008554303.1
COORDINATES: similar to AA sequence:RefSeq:WP_006938104.1
COORDINATES: similar to AA sequence:RefSeq:WP_006936083.1
COORDINATES: similar to AA sequence:RefSeq:WP_005856108.1
COORDINATES: similar to AA sequence:RefSeq:WP_008887561.1
COORDINATES: similar to AA sequence:RefSeq:WP_005856111.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005979670.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019296989.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009467416.1
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_008558242.1
COORDINATES: similar to AA sequence:RefSeq:WP_009467414.1
COORDINATES: similar to AA sequence:RefSeq:WP_011539328.1
COORDINATES: similar to AA sequence:RefSeq:WP_013961062.1
COORDINATES: similar to AA sequence:RefSeq:WP_018064212.1
COORDINATES: similar to AA sequence:RefSeq:WP_006325405.1
COORDINATES: similar to AA sequence:RefSeq:WP_010441878.1
COORDINATES: similar to AA sequence:RefSeq:WP_008835207.1
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006728644.1
COORDINATES: similar to AA sequence:RefSeq:WP_011539331.1
COORDINATES: similar to AA sequence:RefSeq:WP_007801840.1
class II aldolase/adducin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007088601.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015411.2
COORDINATES: protein motif:HMM:NF015445.2
COORDINATES: protein motif:HMM:NF018513.2
COORDINATES: protein motif:HMM:NF016200.2
COORDINATES: similar to AA sequence:RefSeq:WP_018040591.1
COORDINATES: similar to AA sequence:RefSeq:WP_013891604.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815622.1
COORDINATES: similar to AA sequence:RefSeq:WP_019956593.1
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019294810.1
GO:0015837 - amine transport [Evidence IEA]
The N-terminal region of this protein, as described by TIGR01726, is a three transmembrane segment that identifies a subfamily of ABC transporter permease subunits, which specificities that include histidine, arginine, glutamine, glutamate, L-cystine (sic), the opines (in Agrobacterium) octopine and nopaline, etc.; The N-terminal region of this protein, as described by TIGR01726, is a three transmembrane segment that identifies a subfamily of ABC transporter permease subunits, which specificities that include histidine, arginine, glutamine, glutamate, L-cystine (sic), the opines (in Agrobacterium) octopine and nopaline, etc; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009815625.1
COORDINATES: similar to AA sequence:RefSeq:WP_014881859.1
pyridoxal phosphate-dependent aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_008327496.1
Crp/Fnr family transcriptional regulator
COORDINATES: protein motif:HMM:NF020036.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011501042.1
GO:0004096 - catalase activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014074751.1
COORDINATES: similar to AA sequence:RefSeq:WP_009804474.1
COORDINATES: similar to AA sequence:RefSeq:WP_018918118.1
COORDINATES: similar to AA sequence:RefSeq:WP_017927906.1
xanthine dehydrogenase family protein molybdopterin-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_007257022.1
xanthine dehydrogenase family protein subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_007121326.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
2Fe-2S iron-sulfur cluster-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_009813522.1
COORDINATES: similar to AA sequence:RefSeq:WP_016736809.1
COORDINATES: similar to AA sequence:RefSeq:WP_007005270.1
COORDINATES: similar to AA sequence:RefSeq:WP_011483923.1
COORDINATES: protein motif:HMM:NF013567.2
COORDINATES: similar to AA sequence:RefSeq:WP_009813526.1
COORDINATES: similar to AA sequence:RefSeq:WP_007114575.1
D-galactonate dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013754885.1
COORDINATES: similar to AA sequence:RefSeq:WP_011909373.1
COORDINATES: similar to AA sequence:RefSeq:WP_011570056.1
COORDINATES: similar to AA sequence:RefSeq:WP_013960411.1
COORDINATES: similar to AA sequence:RefSeq:WP_006312006.1
COORDINATES: similar to AA sequence:RefSeq:WP_019400759.1
COORDINATES: similar to AA sequence:RefSeq:WP_019566342.1
COORDINATES: similar to AA sequence:RefSeq:WP_007254641.1
COORDINATES: similar to AA sequence:RefSeq:WP_007254642.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]
sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC
COORDINATES: similar to AA sequence:RefSeq:WP_013960410.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824389.1
COORDINATES: similar to AA sequence:RefSeq:WP_005848955.1
COORDINATES: similar to AA sequence:RefSeq:WP_005848953.1
COORDINATES: protein motif:HMM:NF013703.2
GO:0015297 - antiporter activity [Evidence IEA]; GO:0042910 - xenobiotic transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007801473.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009506398.1
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018044311.1
COORDINATES: similar to AA sequence:RefSeq:WP_019404116.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_007801851.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011646015.1
GO:0008794 - arsenate reductase (glutaredoxin) activity [Evidence IEA]
This arsenate reductase requires both glutathione and glutaredoxin to convert arsenate to arsenite, after which the efflux transporter formed by ArsA and ArsB can extrude the arsenite from the cell, providing resistance; Derived by automated computational analysis using gene prediction method: Protein Homology.