Rhodobacter capsulatus SB 1003 plasmid pRCB133, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Rhodobacter.
Complete genome sequence of the photosynthetic purple nonsulfur bacterium Rhodobacter capsulatus SB 1003
Submitted (17-DEC-2008) Department of Genomics and Bioinformatics, Institute of Molecular Genetics AS CR, v.v.i., Videnska 1083, Prague 142 20, Czech Republic
REFSEQ INFORMATION: The reference sequence is identical to\nCP001313.1.\nBacteria available from Hynek Strnad (strnad@img.cas.cz) and Robert\nHaselkorn (rh01@uchicago.edu).\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/22/2023 14:15:54\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) :: 3,722\nCDSs (total) :: 3,653\nGenes (coding) :: 3,600\nCDSs (with protein) :: 3,600\nGenes (RNA) :: 69\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 4\nPseudo Genes (total) :: 53\nCDSs (without protein) :: 53\nPseudo Genes (ambiguous residues) :: 0 of 53\nPseudo Genes (frameshifted) :: 21 of 53\nPseudo Genes (incomplete) :: 38 of 53\nPseudo Genes (internal stop) :: 10 of 53\nPseudo Genes (multiple problems) :: 13 of 53\nCRISPR Arrays :: 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_006937990.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012643322.1
COORDINATES: similar to AA sequence:RefSeq:WP_012643323.1
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013510738.1
amino acid ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007798908.1
COORDINATES: similar to AA sequence:RefSeq:WP_012643326.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501597.1
COORDINATES: similar to AA sequence:RefSeq:WP_011910561.1
sugar phosphate isomerase/epimerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009564029.1
LacI family DNA-binding transcriptional regulator
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_009573714.1
COORDINATES: similar to AA sequence:RefSeq:WP_009573713.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009573712.1
COORDINATES: similar to AA sequence:RefSeq:WP_005859736.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012047171.1
COORDINATES: protein motif:HMM:NF024909.2
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:NF025214.2
COORDINATES: similar to AA sequence:RefSeq:WP_017487243.1
GO:0047343 - glucose-1-phosphate cytidylyltransferase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
glucose-1-phosphate cytidylyltransferase
COORDINATES: protein motif:HMM:NF013530.2
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007092309.1
COORDINATES: similar to AA sequence:RefSeq:WP_012643637.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002719181.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018389271.1
COORDINATES: similar to AA sequence:RefSeq:WP_007818398.1
COORDINATES: similar to AA sequence:RefSeq:WP_007818399.1
COORDINATES: similar to AA sequence:RefSeq:WP_011841553.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010138413.1
COORDINATES: similar to AA sequence:RefSeq:WP_017961016.1
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_013068592.1
COORDINATES: similar to AA sequence:RefSeq:WP_017964802.1
COORDINATES: similar to AA sequence:RefSeq:WP_012758120.1
COORDINATES: similar to AA sequence:RefSeq:WP_003527860.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005628110.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010396932.1
COORDINATES: similar to AA sequence:RefSeq:WP_008554126.1
COORDINATES: similar to AA sequence:RefSeq:WP_012641115.1
ABC transporter substrate-binding protein
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:WP_006724063.1
COORDINATES: similar to AA sequence:RefSeq:WP_007801650.1
COORDINATES: similar to AA sequence:RefSeq:WP_018062912.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
iron chelate uptake ABC transporter family permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_007801652.1
COORDINATES: protein motif:HMM:NF012801.2
COORDINATES: protein motif:HMM:NF012873.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611129.1
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_011841550.1
COORDINATES: protein motif:HMM:NF012235.2
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007007406.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020038291.1
nitrate ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007007408.1
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: similar to AA sequence:RefSeq:WP_018000612.1
TAXI family TRAP transporter solute-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_006725439.1
COORDINATES: similar to AA sequence:RefSeq:WP_008887339.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_009810005.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011241998.1
COORDINATES: similar to AA sequence:RefSeq:WP_013651323.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819365.1
COORDINATES: similar to AA sequence:RefSeq:WP_019965905.1
GO:0017013 - protein flavinylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010396562.1
nitrous oxide reductase accessory protein NosL
COORDINATES: similar to AA sequence:RefSeq:WP_012643415.1
COORDINATES: similar to AA sequence:RefSeq:WP_012179856.1
COORDINATES: similar to AA sequence:RefSeq:WP_010396554.1
nitrous oxide reductase family maturation protein NosD
COORDINATES: similar to AA sequence:RefSeq:WP_009564086.1
GO:0050304 - nitrous-oxide reductase activity [Evidence IEA]
GO:0019333 - denitrification pathway [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009572662.1
COORDINATES: similar to AA sequence:RefSeq:WP_019400906.1
COORDINATES: similar to AA sequence:RefSeq:WP_010399388.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_018182502.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006724584.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011802221.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331459.1
COORDINATES: similar to AA sequence:RefSeq:WP_008032382.1
COORDINATES: similar to AA sequence:RefSeq:WP_009572921.1
organoarsenical effux MFS transporter ArsJ
COORDINATES: similar to AA sequence:RefSeq:WP_008332549.1
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_012177925.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012115924.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008830627.1
sulfite exporter TauE/SafE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017640421.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039020.1
COORDINATES: similar to AA sequence:RefSeq:WP_013338297.1
COORDINATES: similar to AA sequence:RefSeq:WP_006406725.1
zinc-dependent alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003504609.1
COORDINATES: similar to AA sequence:RefSeq:WP_008875028.1
COORDINATES: similar to AA sequence:RefSeq:WP_017499235.1
COORDINATES: similar to AA sequence:RefSeq:WP_015720692.1
COORDINATES: similar to AA sequence:RefSeq:WP_012885520.1
COORDINATES: similar to AA sequence:RefSeq:WP_012384752.1
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.
COORDINATES: similar to AA sequence:RefSeq:WP_014764909.1
COORDINATES: similar to AA sequence:RefSeq:WP_011909774.1
proline/glycine betaine ABC transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_009561243.1
glycine betaine/L-proline ABC transporter ATP-binding protein
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: similar to AA sequence:RefSeq:WP_010443116.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011750429.1
COORDINATES: similar to AA sequence:RefSeq:WP_020041163.1
COORDINATES: similar to AA sequence:RefSeq:WP_005851008.1
Fe(3+)-hydroxamate ABC transporter permease FhuB
COORDINATES: similar to AA sequence:RefSeq:WP_009825840.1
COORDINATES: similar to AA sequence:RefSeq:WP_013368582.1
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_005851002.1
COORDINATES: similar to AA sequence:RefSeq:WP_008887531.1
COORDINATES: similar to AA sequence:RefSeq:WP_008887540.1
COORDINATES: similar to AA sequence:RefSeq:WP_009573265.1
COORDINATES: similar to AA sequence:RefSeq:WP_007812452.1
COORDINATES: similar to AA sequence:RefSeq:WP_008225728.1
bile acid:sodium symporter family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009564978.1
COORDINATES: similar to AA sequence:RefSeq:WP_009564977.1
energy-coupling factor transporter transmembrane protein EcfT
COORDINATES: similar to AA sequence:RefSeq:WP_009564976.1
COORDINATES: similar to AA sequence:RefSeq:WP_009564975.1
GO:0005342 - organic acid transmembrane transporter activity [Evidence IEA]
GO:0015849 - organic acid transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011389084.1
COORDINATES: similar to AA sequence:RefSeq:WP_011389083.1
COORDINATES: similar to AA sequence:RefSeq:WP_009564972.1
GO:0051191 - prosthetic group biosynthetic process [Evidence IEA]
malonate decarboxylase holo-[acyl-carrier-protein] synthase
COORDINATES: similar to AA sequence:RefSeq:WP_011389081.1
COORDINATES: similar to AA sequence:RefSeq:WP_011389080.1
GO:0044262 - cellular carbohydrate metabolic process [Evidence IEA]
biotin-independent malonate decarboxylase subunit gamma
COORDINATES: similar to AA sequence:RefSeq:WP_011471528.1
GO:0009317 - acetyl-CoA carboxylase complex [Evidence IEA]
GO:0003989 - acetyl-CoA carboxylase activity [Evidence IEA]; GO:0016831 - carboxy-lyase activity [Evidence IEA]
GO:0044262 - cellular carbohydrate metabolic process [Evidence IEA]; GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
biotin-independent malonate decarboxylase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_011389078.1
malonate decarboxylase acyl carrier protein
COORDINATES: similar to AA sequence:RefSeq:WP_009564963.1
GO:0015451 - decarboxylation-driven active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011389076.1
GO:0004077 - biotin-[acetyl-CoA-carboxylase] ligase activity [Evidence IEA]
GO:0036211 - protein modification process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009564961.1
Na+-transporting malonate decarboxylase, carboxybiotin decarboxylase subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009564959.1
GO:0046917 - triphosphoribosyl-dephospho-CoA synthase activity [Evidence IEA]
GO:0019361 - 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA biosynthetic process [Evidence IEA]
triphosphoribosyl-dephospho-CoA synthase MdcB
COORDINATES: similar to AA sequence:RefSeq:WP_009564958.1
COORDINATES: similar to AA sequence:RefSeq:WP_013067797.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819615.1
GO:0015109 - chromate transmembrane transporter activity [Evidence IEA]
GO:0015703 - chromate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017479660.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030522.1
COORDINATES: similar to AA sequence:RefSeq:WP_010138207.1
COORDINATES: similar to AA sequence:RefSeq:WP_011241905.1
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.
COORDINATES: similar to AA sequence:RefSeq:WP_002722075.1
COORDINATES: similar to AA sequence:RefSeq:WP_002722077.1
COORDINATES: similar to AA sequence:RefSeq:WP_009562501.1
COORDINATES: similar to AA sequence:RefSeq:WP_011582868.1
COORDINATES: similar to AA sequence:RefSeq:WP_002722085.1
COORDINATES: similar to AA sequence:RefSeq:WP_011336746.1
BadF/BadG/BcrA/BcrD ATPase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011582865.1
glucosamine--fructose-6-phosphate aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_002725025.1
COORDINATES: similar to AA sequence:RefSeq:WP_007798926.1
GO:0004056 - argininosuccinate lyase activity [Evidence IEA]
GO:0042450 - arginine biosynthetic process via ornithine [Evidence IEA]