Rhodovulum sulfidophilum strain SNK001 plasmid unnamed, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Rhodovulum.
Submitted (27-APR-2016) Department of Environmental and Life Sciences, Toyohashi University of Technology, 1-1 Hibarigaoka, Tenpaku-cho, Toyohashi, Aichi 4418580, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nCP015422.1.\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 :: Newbler v. 2.9\nGenome Coverage :: 332x\nSequencing Technology :: 454; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/20/2022 01:27:42\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) :: 4,038\nCDSs (total) :: 3,974\nGenes (coding) :: 3,864\nCDSs (with protein) :: 3,864\nGenes (RNA) :: 64\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 3\nPseudo Genes (total) :: 110\nCDSs (without protein) :: 110\nPseudo Genes (ambiguous residues) :: 0 of 110\nPseudo Genes (frameshifted) :: 51 of 110\nPseudo Genes (incomplete) :: 87 of 110\nPseudo Genes (internal stop) :: 23 of 110\nPseudo Genes (multiple problems) :: 44 of 110\nCRISPR Arrays :: 1\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+.
autotransporter domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012643364.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008759571.1
COORDINATES: similar to AA sequence:RefSeq:WP_008186599.1
COORDINATES: similar to AA sequence:RefSeq:WP_013067163.1
COORDINATES: similar to AA sequence:RefSeq:WP_013067164.1
COORDINATES: similar to AA sequence:RefSeq:WP_011817187.1
COORDINATES: protein motif:HMM:NF012873.2
COORDINATES: similar to AA sequence:RefSeq:WP_009113496.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
iron chelate uptake ABC transporter family permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_004725188.1
COORDINATES: similar to AA sequence:RefSeq:WP_013067168.1
Fe2+-enterobactin ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_010397623.1
COORDINATES: protein motif:HMM:NF012711.2
COORDINATES: similar to AA sequence:RefSeq:WP_011748668.1
GO:0008668 - (2,3-dihydroxybenzoyl)adenylate synthase activity [Evidence IEA]
GO:0019290 - siderophore biosynthetic process [Evidence IEA]
(2,3-dihydroxybenzoyl)adenylate synthase
COORDINATES: similar to AA sequence:RefSeq:WP_006172413.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013786.2
GO:0008897 - holo-[acyl-carrier-protein] synthase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
4'-phosphopantetheinyl transferase superfamily protein
COORDINATES: similar to AA sequence:RefSeq:WP_014647416.1
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_017998809.1
COORDINATES: similar to AA sequence:RefSeq:WP_007438394.1
GO:0008909 - isochorismate synthase activity [Evidence IEA]
GO:0009234 - menaquinone biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013067169.1
COORDINATES: similar to AA sequence:RefSeq:WP_028710025.1
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_007007410.1
COORDINATES: similar to AA sequence:RefSeq:WP_011747804.1
COORDINATES: similar to AA sequence:RefSeq:WP_013069286.1
COORDINATES: similar to AA sequence:RefSeq:WP_007007407.1
taurine ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007007406.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011747808.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018429550.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824711.1
type 1 glutamine amidotransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009573564.1
COORDINATES: similar to AA sequence:RefSeq:WP_020041531.1
COORDINATES: similar to AA sequence:RefSeq:WP_007811101.1
alcohol dehydrogenase catalytic domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009467083.1
COORDINATES: similar to AA sequence:RefSeq:WP_018064341.1
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_018700369.1
COORDINATES: similar to AA sequence:RefSeq:WP_009830171.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_012178699.1
LacI family DNA-binding transcriptional regulator
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_003263272.1
COORDINATES: similar to AA sequence:RefSeq:WP_007793235.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_020042543.1
COORDINATES: similar to AA sequence:RefSeq:WP_020042037.1
COORDINATES: similar to AA sequence:RefSeq:WP_012758120.1
COORDINATES: protein motif:HMM:NF025605.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006395198.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0015343 - siderophore-iron transmembrane transporter activity [Evidence IEA]
GO:0015891 - siderophore transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF019633.2
COORDINATES: similar to AA sequence:RefSeq:WP_008886169.1
COORDINATES: similar to AA sequence:RefSeq:WP_006470140.1
COORDINATES: similar to AA sequence:RefSeq:WP_002968376.1
COORDINATES: similar to AA sequence:RefSeq:WP_010096225.1
GO:0003985 - acetyl-CoA C-acetyltransferase activity [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012092549.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: protein motif:HMM:NF015734.2
COORDINATES: protein motif:HMM:NF016736.2
COORDINATES: similar to AA sequence:RefSeq:WP_007460771.1
COORDINATES: protein motif:HMM:NF016595.2
COORDINATES: protein motif:HMM:NF039279.1
COORDINATES: similar to AA sequence:RefSeq:WP_020875623.1
GO:0005198 - structural molecule activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020576035.1
phage tail sheath subtilisin-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011747810.1
COORDINATES: similar to AA sequence:RefSeq:WP_011747811.1
COORDINATES: similar to AA sequence:RefSeq:WP_003533437.1
COORDINATES: similar to AA sequence:RefSeq:WP_007007425.1
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: protein motif:HMM:NF016807.2
COORDINATES: nucleotide motif:Rfam:14.4:RF00174
cobalamin riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:YP_002517214.1
GO:0004451 - isocitrate lyase activity [Evidence IEA]
GO:0019752 - carboxylic acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013069033.1
GO:0004474 - malate synthase activity [Evidence IEA]
GO:0006099 - tricarboxylic acid cycle [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011646255.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008227053.1
COORDINATES: similar to AA sequence:RefSeq:WP_008334708.1
COORDINATES: similar to AA sequence:RefSeq:WP_008557307.1
manganese/iron ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019297676.1
metal ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008334703.1
COORDINATES: similar to AA sequence:RefSeq:WP_013385437.1
GO:0003871 - 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0009086 - methionine biosynthetic process [Evidence IEA]
5-methyltetrahydropteroyltriglutamate-- homocysteine S-methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_015498499.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008206455.1
COORDINATES: similar to AA sequence:RefSeq:WP_019971848.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015664.1
SufD family Fe-S cluster assembly protein
COORDINATES: protein motif:HMM:NF013648.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014776703.1
heme utilization cystosolic carrier protein HutX