Neotabrizicola shimadae strain N10 plasmid unnamed2, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae; Neotabrizicola.
Rhodobacter shimadae sp. nov., an aerobic anoxygenic phototrophic bacterium isolated from a hot spring
Submitted (03-FEB-2021) Biological Sciences, Tokyo Metropolitan University, 1-1 Minami-osawa, Hachioji, Tokyo 192-0397, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nCP069372.1.\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 :: 15-MAY-2020\nAssembly Method :: Unicycler v. 0.4.7\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 325.0x\nSequencing Technology :: Oxford Nanopore GridION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/07/2022 01:45:18\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,272\nCDSs (total) :: 4,215\nGenes (coding) :: 4,155\nCDSs (with protein) :: 4,155\nGenes (RNA) :: 57\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 60\nCDSs (without protein) :: 60\nPseudo Genes (ambiguous residues) :: 0 of 60\nPseudo Genes (frameshifted) :: 9 of 60\nPseudo Genes (incomplete) :: 52 of 60\nPseudo Genes (internal stop) :: 6 of 60\nPseudo Genes (multiple problems) :: 7 of 60\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011579889.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008931778.1
putative DNA binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010925989.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011339496.1
COORDINATES: similar to AA sequence:RefSeq:WP_006406606.1
COORDINATES: similar to AA sequence:RefSeq:WP_011339494.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803302.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820104.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065919.1
bifunctional class I SAM-dependent methyltransferase/DEAD/DEAH box helicase
COORDINATES: similar to AA sequence:RefSeq:WP_009820102.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803278.1
antitoxin of toxin-antitoxin stability system
COORDINATES: similar to AA sequence:RefSeq:WP_009820093.1
COORDINATES: similar to AA sequence:RefSeq:WP_009574196.1
COORDINATES: similar to AA sequence:RefSeq:WP_009574197.1
COORDINATES: similar to AA sequence:RefSeq:WP_011646949.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803272.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827206.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018065906.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827208.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_005859736.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820079.1
COORDINATES: similar to AA sequence:RefSeq:WP_008600975.1
COORDINATES: protein motif:HMM:NF039808.1
COORDINATES: similar to AA sequence:RefSeq:WP_007220263.1
GO:0008641 - ubiquitin-like modifier activating enzyme activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012590964.1
COORDINATES: protein motif:HMM:NF025808.2
multiubiquitin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008294720.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120660.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065899.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827215.1
COORDINATES: similar to AA sequence:RefSeq:WP_018001791.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_018001792.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819726.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065894.1
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_008335981.1
COORDINATES: protein motif:HMM:NF021039.2
COORDINATES: similar to AA sequence:RefSeq:WP_012075187.1
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_012249451.1
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_012631078.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030632.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003500191.1
COORDINATES: similar to AA sequence:RefSeq:WP_010123250.1
GO:0005375 - copper ion transmembrane transporter activity [Evidence IEA]; GO:0043682 - P-type divalent copper transporter activity [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF024853.2
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012180063.1
COORDINATES: similar to AA sequence:RefSeq:WP_011909585.1
COORDINATES: protein motif:HMM:NF013487.2
COORDINATES: similar to AA sequence:RefSeq:WP_019294768.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065788.1
ferric reductase-like transmembrane domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002719489.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014763440.1
COORDINATES: similar to AA sequence:RefSeq:WP_007205793.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030637.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030994.1
COORDINATES: similar to AA sequence:RefSeq:WP_010400335.1
GO:0005507 - copper ion binding [Evidence IEA]
multicopper oxidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005859586.1
COORDINATES: protein motif:HMM:NF017243.2
COORDINATES: similar to AA sequence:RefSeq:WP_009565819.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807941.1
COORDINATES: similar to AA sequence:RefSeq:WP_007811882.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019726444.1
COORDINATES: similar to AA sequence:RefSeq:WP_011579888.1