Rhodovastum atsumiense strain G2-11 plasmid RHOApc.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Acetobacteraceae; Rhodovastum.
Submitted (07-APR-2022) Genoscope CEA, 2 rue Gaston Cremieux CP5706 91057 Evry cedex, France, France
REFSEQ INFORMATION: The reference sequence is identical to\nOW485604.1.\nGenome annotation was performed using the MicroScope platform.\nAdditional annotation results about similarity searches,\ncomparative genomics and metabolic network predictions are\navailable on the platform web site\n(http://www.genoscope.cns.fr/agc/microscope).\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 :: 06/04/2023 04:19:20\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 6,736\nCDSs (total) :: 6,659\nGenes (coding) :: 6,536\nCDSs (with protein) :: 6,536\nGenes (RNA) :: 77\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 58\nncRNAs :: 4\nPseudo Genes (total) :: 123\nCDSs (without protein) :: 123\nPseudo Genes (ambiguous residues) :: 0 of 123\nPseudo Genes (frameshifted) :: 31 of 123\nPseudo Genes (incomplete) :: 106 of 123\nPseudo Genes (internal stop) :: 9 of 123\nPseudo Genes (multiple problems) :: 23 of 123\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:WP_013592029.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007795665.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
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_018328092.1
COORDINATES: similar to AA sequence:RefSeq:WP_017773640.1
transporter substrate-binding domain-containing protein
COORDINATES: protein motif:HMM:NF024751.2
COORDINATES: protein motif:HMM:NF015038.2
COORDINATES: similar to AA sequence:RefSeq:WP_011471204.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_013368514.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612067.1
frameshifted; 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:NF024980.2
winged helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF033580.1
COORDINATES: protein motif:HMM:NF020704.2
COORDINATES: protein motif:HMM:NF024800.2
COORDINATES: similar to AA sequence:RefSeq:WP_012330183.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612189.1
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_013635080.1
COORDINATES: similar to AA sequence:RefSeq:WP_018269998.1
COORDINATES: similar to AA sequence:RefSeq:WP_004128951.1
COORDINATES: similar to AA sequence:RefSeq:WP_011970376.1
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; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: protein motif:HMM:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - DNA transposition [Evidence IEA]
COORDINATES: protein motif:HMM:NF033545.0
COORDINATES: similar to AA sequence:RefSeq:WP_012555450.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019013909.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_007598463.1
COORDINATES: protein motif:HMM:NF012403.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0140658 - ATP-dependent chromatin remodeler activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF028103.2
DNA-primase RepB domain-containing protein
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611628.1
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_020094536.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019016646.1
COORDINATES: protein motif:HMM:TIGR00229.1
COORDINATES: protein motif:HMM:NF013853.2
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.; frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015642.2
COORDINATES: protein motif:HMM:NF013989.2
GO:0008703 - 5-amino-6-(5-phosphoribosylamino)uracil reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007918191.1
COORDINATES: protein motif:HMM:TIGR00254.1
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007396417.1
COORDINATES: protein motif:HMM:NF017077.2
COORDINATES: protein motif:HMM:NF014763.2
COORDINATES: similar to AA sequence:RefSeq:WP_009630802.1
COORDINATES: similar to AA sequence:RefSeq:WP_019092710.1
COORDINATES: similar to AA sequence:RefSeq:WP_006698978.1
COORDINATES: similar to AA sequence:RefSeq:WP_012564800.1
DUF3991 and toprim domain-containing protein
COORDINATES: protein motif:HMM:NF012234.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024601.2
COORDINATES: similar to AA sequence:RefSeq:WP_010512021.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019463361.1
COORDINATES: protein motif:HMM:NF010406.0
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF015438.2
GO:0003824 - catalytic activity [Evidence IEA]; GO:0030151 - molybdenum ion binding [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF018381.2
COORDINATES: similar to AA sequence:RefSeq:WP_008509741.1
COORDINATES: similar to AA sequence:RefSeq:WP_008833702.1
COORDINATES: similar to AA sequence:RefSeq:WP_009182217.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF025079.2
COORDINATES: protein motif:HMM:NF033527.1
COORDINATES: similar to AA sequence:RefSeq:WP_012222311.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008494675.1
GO:0004540 - RNA nuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012384501.1
COORDINATES: similar to AA sequence:RefSeq:WP_016738583.1
COORDINATES: protein motif:HMM:NF019421.2
COORDINATES: similar to AA sequence:RefSeq:WP_012978582.1
COORDINATES: protein motif:HMM:NF021897.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: similar to AA sequence:RefSeq:WP_006050312.1
MOSC and FAD-binding oxidoreductase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006983270.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
DHA2 family efflux MFS transporter permease subunit
COORDINATES: protein motif:HMM:NF012739.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006051218.1
COORDINATES: similar to AA sequence:RefSeq:WP_007748540.1
COORDINATES: similar to AA sequence:RefSeq:WP_016558398.1
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: protein motif:HMM:TIGR02740.1
COORDINATES: protein motif:HMM:NF024803.2
COORDINATES: protein motif:HMM:NF015630.2
COORDINATES: similar to AA sequence:RefSeq:WP_007564066.1
COORDINATES: similar to AA sequence:RefSeq:WP_015282537.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611714.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013634972.1
COORDINATES: similar to AA sequence:RefSeq:WP_012606247.1
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:NF014036.2
GO:0005525 - GTP binding [Evidence IEA]; GO:0003924 - GTPase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF037494.2
COORDINATES: similar to AA sequence:RefSeq:WP_012812734.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611268.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024954.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612190.1
internal stop; 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_076611833.1
GO:0043565 - sequence-specific DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016922178.1
COORDINATES: similar to AA sequence:RefSeq:WP_017980723.1
COORDINATES: protein motif:HMM:NF024776.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612206.1
COORDINATES: protein motif:HMM:NF033572.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819623.1
COORDINATES: similar to AA sequence:RefSeq:WP_009476145.1
COORDINATES: similar to AA sequence:RefSeq:WP_017155993.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008887 - glycerate kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016956504.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0006189 - 'de novo' IMP biosynthetic process [Evidence IEA]
nickel pincer cofactor biosynthesis protein LarB
COORDINATES: similar to AA sequence:RefSeq:WP_002718548.1
COORDINATES: similar to AA sequence:RefSeq:WP_013168274.1
COORDINATES: similar to AA sequence:RefSeq:WP_003592594.1
GO:0050043 - lactate racemase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011474832.1
COORDINATES: protein motif:HMM:NF018240.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma 54-interacting transcriptional regulator