Sulfitobacter faviae strain SCSIO W_1865 plasmid unnamed3, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Sulfitobacter.
Comparative genomic analysis of cold water coral derived Sulfitobacter faviae: insights into their metabolism and habitat adaptation
Submitted (18-JAN-2023) Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Haibin Road, Guangzhou, Guangdong 511458, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP116426.1.\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 Date :: 01-SEP-2022\nAssembly Method :: ABySS v. Version: 2.1.5\nAssembly Name :: SCSIO W_1865\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100x\nSequencing Technology :: Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 01/29/2023 16:33:37\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) :: 3,928\nCDSs (total) :: 3,863\nGenes (coding) :: 3,830\nCDSs (with protein) :: 3,830\nGenes (RNA) :: 65\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 4\nPseudo Genes (total) :: 33\nCDSs (without protein) :: 33\nPseudo Genes (ambiguous residues) :: 0 of 33\nPseudo Genes (frameshifted) :: 14 of 33\nPseudo Genes (incomplete) :: 16 of 33\nPseudo Genes (internal stop) :: 9 of 33\nPseudo Genes (multiple problems) :: 6 of 33\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_010405647.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009820177.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282903.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282902.1
GO:0004585 - ornithine carbamoyltransferase activity [Evidence IEA]
GO:0042450 - arginine biosynthetic process via ornithine [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009288186.1
GO:0008804 - carbamate kinase activity [Evidence IEA]
GO:0006520 - amino acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009820173.1
COORDINATES: similar to AA sequence:RefSeq:WP_013833420.1
type II glyceraldehyde-3-phosphate dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_009820171.1
cyclopropane-fatty-acyl-phospholipid synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008282897.1
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: similar to AA sequence:RefSeq:WP_008282896.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959899.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959898.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959897.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959896.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820165.1
GO:0004318 - enoyl-[acyl-carrier-protein] reductase (NADH) activity [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020040972.1
GO:0045275 - respiratory chain complex III [Evidence IEA]
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0008121 - ubiquinol-cytochrome-c reductase activity [Evidence IEA]
GO:0009060 - aerobic respiration [Evidence IEA]
ubiquinol-cytochrome c reductase iron-sulfur subunit
COORDINATES: protein motif:HMM:NF012780.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF016836.2
COORDINATES: protein motif:HMM:NF015451.2
COORDINATES: similar to AA sequence:RefSeq:WP_006911966.1
phosphatidylserine/phosphatidylglycerophosphate/ cardiolipin synthase family 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_013959892.1
COORDINATES: similar to AA sequence:RefSeq:WP_009573627.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282885.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282884.1
COORDINATES: similar to AA sequence:RefSeq:WP_017355175.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820155.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959889.1
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: protein motif:HMM:NF013298.2
COORDINATES: similar to AA sequence:RefSeq:WP_007816659.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803526.1
COORDINATES: protein motif:HMM:NF018648.2
GO:0015385 - sodium:proton antiporter activity [Evidence IEA]
GO:1902600 - proton transmembrane transport [Evidence IEA]; GO:0006814 - sodium ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009827231.1
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_012187172.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282968.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120686.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007120685.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282965.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327370.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009808058.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327373.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_009807508.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012187326.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120678.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820232.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807512.1
COORDINATES: similar to AA sequence:RefSeq:WP_011536592.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_008327387.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820228.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187154.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120671.1
COORDINATES: similar to AA sequence:RefSeq:WP_009808070.1
COORDINATES: similar to AA sequence:RefSeq:WP_018066197.1
COORDINATES: similar to AA sequence:RefSeq:WP_008282491.1
GO:0098662 - inorganic cation transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009449792.1
GO:0015087 - cobalt ion transmembrane transporter activity [Evidence IEA]; GO:0015095 - magnesium ion transmembrane transporter activity [Evidence IEA]
GO:0006824 - cobalt ion transport [Evidence IEA]; GO:0015693 - magnesium ion transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF015651.2
lysylphosphatidylglycerol synthase transmembrane domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011786451.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187132.1
COORDINATES: similar to AA sequence:RefSeq:WP_013963365.1
COORDINATES: similar to AA sequence:RefSeq:WP_010130959.1
GO:0005515 - protein binding [Evidence IEA]
frameshifted; 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_009807937.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009807938.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007120663.1
COORDINATES: protein motif:HMM:NF019844.2
COORDINATES: similar to AA sequence:RefSeq:WP_009820257.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501800.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501802.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187346.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819680.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187348.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327427.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327435.1
COORDINATES: similar to AA sequence:RefSeq:WP_006938674.1
type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family
COORDINATES: similar to AA sequence:RefSeq:WP_009618210.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008327446.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820261.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807539.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_012187358.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120641.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807542.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008282917.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820102.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803257.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503880.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009503879.1
COORDINATES: similar to AA sequence:RefSeq:WP_006643175.1
COORDINATES: similar to AA sequence:RefSeq:WP_013654751.1
COORDINATES: similar to AA sequence:RefSeq:WP_009505369.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503875.1
COORDINATES: similar to AA sequence:RefSeq:WP_007817689.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503872.1
histidine kinase dimerization/phospho-acceptor domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018001791.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009503869.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820070.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827042.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503866.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011331447.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503864.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187391.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820137.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820136.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611905.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009503854.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815498.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807971.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503851.1
COORDINATES: similar to AA sequence:RefSeq:WP_008889351.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009815494.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815493.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0017000 - antibiotic biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009503847.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815491.1
GO:0016410 - N-acyltransferase activity [Evidence IEA]
GO:0042158 - lipoprotein biosynthetic process [Evidence IEA]; GO:0006497 - protein lipidation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009573591.1
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_007803463.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959872.1
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_009503840.1
COORDINATES: similar to AA sequence:RefSeq:WP_018001721.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815483.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009827282.1
COORDINATES: similar to AA sequence:RefSeq:WP_018303599.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009573601.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018273520.1
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.; 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_007803484.1
COORDINATES: similar to AA sequence:RefSeq:WP_009815479.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827286.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
cation diffusion facilitator family transporter
COORDINATES: protein motif:HMM:NF019351.2
GO:0005507 - copper ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
multicopper oxidase domain-containing protein
COORDINATES: protein motif:HMM:NF019352.2
GO:0005507 - copper ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005619231.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824460.1
GO:0008961 - phosphatidylglycerol-prolipoprotein diacylglyceryl transferase activity [Evidence IEA]
GO:0009249 - protein lipoylation [Evidence IEA]
prolipoprotein diacylglyceryl transferase
COORDINATES: similar to AA sequence:RefSeq:WP_005619223.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_005619220.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824464.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824465.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065796.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619214.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824471.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009824472.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803387.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824474.1
DsbE family thiol:disulfide interchange protein
COORDINATES: similar to AA sequence:RefSeq:WP_009824475.1
cytochrome c-type biogenesis protein CcmH
COORDINATES: similar to AA sequence:RefSeq:WP_009824476.1
GO:0051082 - unfolded protein binding [Evidence IEA]
GO:0017004 - cytochrome complex assembly [Evidence IEA]
c-type cytochrome biogenesis protein CcmI
COORDINATES: similar to AA sequence:RefSeq:WP_005619195.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824478.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619190.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824480.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005619187.1
COORDINATES: similar to AA sequence:RefSeq:WP_011567396.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807486.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619178.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803403.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619174.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824486.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619169.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824487.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619165.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005619163.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824489.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006878 - cellular copper ion homeostasis [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Cu(I)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009824490.1
COORDINATES: similar to AA sequence:RefSeq:WP_008330690.1
COORDINATES: similar to AA sequence:RefSeq:WP_005619156.1
protein-disulfide reductase DsbD family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007668202.1
COORDINATES: protein motif:HMM:NF012355.2
COORDINATES: similar to AA sequence:RefSeq:WP_009827246.1
COORDINATES: similar to AA sequence:RefSeq:WP_012251418.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612399.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827253.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827254.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827255.1
proton-conducting transporter membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009827256.1
GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
GO:0042773 - ATP synthesis coupled electron transport [Evidence IEA]
NADH-quinone oxidoreductase subunit NuoK
COORDINATES: similar to AA sequence:RefSeq:WP_018622809.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827258.1
COORDINATES: protein motif:HMM:NF012566.2
heavy metal-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011992995.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820168.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820179.1
COORDINATES: protein motif:HMM:NF012581.2
COORDINATES: protein motif:HMM:NF013862.2
patatin-like phospholipase family protein