Roseomonas marmotae strain 1318 plasmid p1318-1.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Acetobacteraceae; Roseomonas.
Submitted (02-SEP-2020) National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, No. 155 Changbai Road, Changping District, Beijing 102206, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP061092.1.\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 :: SMRT v. SMRT Link v5.1.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/11/2023 00:10:30\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) :: 4,598\nCDSs (total) :: 4,525\nGenes (coding) :: 4,419\nCDSs (with protein) :: 4,419\nGenes (RNA) :: 73\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 4\nPseudo Genes (total) :: 106\nCDSs (without protein) :: 106\nPseudo Genes (ambiguous residues) :: 0 of 106\nPseudo Genes (frameshifted) :: 50 of 106\nPseudo Genes (incomplete) :: 72 of 106\nPseudo Genes (internal stop) :: 15 of 106\nPseudo Genes (multiple problems) :: 27 of 106\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##
COORDINATES: protein motif:HMM:NF018691.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF015366.2
tripartite tricarboxylate transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611612.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611908.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014081.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006577538.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_002617901.1
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:NF015431.2
COORDINATES: protein motif:HMM:NF024736.2
COORDINATES: protein motif:HMM:NF033517.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611756.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612204.1
COORDINATES: similar to AA sequence:RefSeq:WP_007436374.1
COORDINATES: similar to AA sequence:RefSeq:WP_019461754.1
tripartite tricarboxylate transporter substrate binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_004139381.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
excalibur calcium-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007005146.1
COORDINATES: similar to AA sequence:RefSeq:WP_012252503.1
HNH endonuclease signature motif containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012631434.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002715503.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019831272.1
COORDINATES: similar to AA sequence:RefSeq:WP_002713057.1
COORDINATES: similar to AA sequence:RefSeq:WP_015476031.1
COORDINATES: protein motif:HMM:NF013936.2
COORDINATES: similar to AA sequence:RefSeq:WP_009867760.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611187.1
COORDINATES: similar to AA sequence:RefSeq:WP_014989603.1
pirin-like C-terminal cupin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002640116.1
COORDINATES: similar to AA sequence:RefSeq:WP_012378121.1
COORDINATES: similar to AA sequence:RefSeq:WP_011646506.1
COORDINATES: similar to AA sequence:RefSeq:WP_012455797.1
COORDINATES: protein motif:HMM:NF012925.2
COORDINATES: similar to AA sequence:RefSeq:WP_012333167.1
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: similar to AA sequence:RefSeq:WP_012275035.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611653.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011083103.1
COORDINATES: similar to AA sequence:RefSeq:WP_006325381.1
COORDINATES: similar to AA sequence:RefSeq:WP_018443861.1
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF012706.2
COORDINATES: protein motif:HMM:NF014841.2
COORDINATES: protein motif:HMM:NF013757.2
COORDINATES: similar to AA sequence:RefSeq:WP_007437179.1
COORDINATES: similar to AA sequence:RefSeq:WP_018261097.1
COORDINATES: protein motif:HMM:NF025189.2
COORDINATES: protein motif:HMM:NF015038.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612405.1
frameshifted; internal stop; 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.
IS66 family transposase zinc-finger binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003551410.1
COORDINATES: similar to AA sequence:RefSeq:WP_007680245.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611557.1
COORDINATES: similar to AA sequence:RefSeq:WP_007605829.1
COORDINATES: similar to AA sequence:RefSeq:WP_018323172.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183759.1
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 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012522645.1
COORDINATES: similar to AA sequence:RefSeq:WP_012605339.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008840573.1
COORDINATES: similar to AA sequence:RefSeq:WP_015319154.1
COORDINATES: similar to AA sequence:RefSeq:WP_012605349.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_014250162.1
COORDINATES: similar to AA sequence:RefSeq:WP_014250160.1
COORDINATES: similar to AA sequence:RefSeq:WP_019461922.1
COORDINATES: similar to AA sequence:RefSeq:WP_012318304.1
COORDINATES: similar to AA sequence:RefSeq:WP_018261708.1
COORDINATES: similar to AA sequence:RefSeq:WP_018261709.1
COORDINATES: similar to AA sequence:RefSeq:WP_015933590.1
COORDINATES: protein motif:HMM:TIGR02595.1
PEP-CTERM sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012224748.1
GO:0016301 - kinase activity [Evidence IEA]
type II toxin-antitoxin system death-on-curing family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003620405.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007004518.1
COORDINATES: similar to AA sequence:RefSeq:WP_018245063.1
GO:0009027 - tartrate dehydrogenase activity [Evidence IEA]
GO:0046395 - carboxylic acid catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007437139.1
COORDINATES: similar to AA sequence:RefSeq:WP_019459510.1
COORDINATES: similar to AA sequence:RefSeq:WP_019862057.1
SMP-30/gluconolactonase/LRE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019012695.1
COORDINATES: similar to AA sequence:RefSeq:WP_007438493.1
COORDINATES: protein motif:HMM:NF024880.2
methyltransferase domain-containing protein
COORDINATES: protein motif:HMM:NF012744.2
COORDINATES: protein motif:HMM:TIGR01843.1
GO:0030253 - protein secretion by the type I secretion system [Evidence IEA]
HlyD family type I secretion periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012969477.1
COORDINATES: similar to AA sequence:RefSeq:WP_012331210.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF025314.2
COORDINATES: similar to AA sequence:RefSeq:WP_007438819.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611663.1
COORDINATES: protein motif:HMM:NF024935.2
COORDINATES: similar to AA sequence:RefSeq:WP_012453218.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611221.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611338.1
COORDINATES: similar to AA sequence:RefSeq:WP_007435233.1
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007005593.1
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007564854.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0009897 - external side of plasma membrane [Evidence IEA]; GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0043168 - anion binding [Evidence IEA]; GO:0043225 - ATPase-coupled inorganic anion transmembrane transporter activity [Evidence IEA]
phosphate/phosphite/phosphonate ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007435230.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0009898 - cytoplasmic side of plasma membrane [Evidence IEA]
GO:0015416 - ABC-type phosphonate transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]
GO:0015716 - organic phosphonate transport [Evidence IEA]
phosphonate ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019015260.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015416 - ABC-type phosphonate transporter activity [Evidence IEA]
phosphonate ABC transporter, permease protein PhnE
COORDINATES: similar to AA sequence:RefSeq:WP_019015259.1
COORDINATES: similar to AA sequence:RefSeq:WP_012978443.1
GO:0009331 - glycerol-3-phosphate dehydrogenase complex [Evidence IEA]
GO:0004368 - glycerol-3-phosphate dehydrogenase (quinone) activity [Evidence IEA]
GO:0006072 - glycerol-3-phosphate metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024954.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_086558204.1
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_012367242.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611348.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611121.1
internal stop; 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_020094498.1
COORDINATES: similar to AA sequence:RefSeq:WP_009817780.1
COORDINATES: similar to AA sequence:RefSeq:WP_020050433.1
COORDINATES: protein motif:HMM:NF019310.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006614119.1
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007683997.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
LuxR C-terminal-related transcriptional regulator
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: similar to AA sequence:RefSeq:WP_006272384.1
COORDINATES: similar to AA sequence:RefSeq:WP_008877622.1
COORDINATES: similar to AA sequence:RefSeq:WP_010235956.1
COORDINATES: protein motif:HMM:TIGR00229.1
COORDINATES: similar to AA sequence:RefSeq:WP_007436863.1
COORDINATES: similar to AA sequence:RefSeq:WP_012554206.1
GO:0008150 - biological_process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014327616.1
COORDINATES: similar to AA sequence:RefSeq:WP_007564099.1
COORDINATES: similar to AA sequence:RefSeq:WP_018270490.1
GO:0015833 - peptide transport [Evidence IEA]
dipeptide ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007437437.1
COORDINATES: similar to AA sequence:RefSeq:WP_007437436.1
COORDINATES: similar to AA sequence:RefSeq:WP_019460756.1
COORDINATES: similar to AA sequence:RefSeq:WP_007002905.1
COORDINATES: similar to AA sequence:RefSeq:WP_019013768.1
COORDINATES: similar to AA sequence:RefSeq:WP_007002907.1
COORDINATES: similar to AA sequence:RefSeq:WP_007675736.1
GO:0005525 - GTP binding [Evidence IEA]; GO:0043022 - ribosome binding [Evidence IEA]
ribosome small subunit-dependent GTPase A
COORDINATES: similar to AA sequence:RefSeq:WP_009542570.1
amino acid ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_015928923.1
COORDINATES: similar to AA sequence:RefSeq:WP_019013644.1
COORDINATES: protein motif:HMM:NF012264.2
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013902746.1
COORDINATES: similar to AA sequence:RefSeq:WP_020723269.1
COORDINATES: protein motif:HMM:NF012550.2
COORDINATES: protein motif:HMM:NF012770.2
COORDINATES: similar to AA sequence:RefSeq:WP_014749049.1
COORDINATES: similar to AA sequence:RefSeq:WP_018062965.1
GO:0016836 - hydro-lyase activity [Evidence IEA]
fumarate hydratase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008878464.1
COORDINATES: similar to AA sequence:RefSeq:WP_006462966.1
glutathione S-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007436219.1
CaiB/BaiF CoA-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007436218.1
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008996544.1
enoyl-CoA hydratase/isomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007436216.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014749174.1
COORDINATES: similar to AA sequence:RefSeq:WP_013520089.1
COORDINATES: similar to AA sequence:RefSeq:WP_017521785.1
COORDINATES: similar to AA sequence:RefSeq:WP_007435572.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762874.1
COORDINATES: similar to AA sequence:RefSeq:WP_041371609.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611158.1
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_013217167.1
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: similar to AA sequence:RefSeq:WP_011872570.1
COORDINATES: similar to AA sequence:RefSeq:WP_015918521.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008888263.1
COORDINATES: similar to AA sequence:RefSeq:WP_002723717.1
COORDINATES: similar to AA sequence:RefSeq:WP_012179206.1
COORDINATES: similar to AA sequence:RefSeq:WP_010516908.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611171.1
COORDINATES: similar to AA sequence:RefSeq:WP_007564545.1
COORDINATES: similar to AA sequence:RefSeq:WP_007534216.1
COORDINATES: similar to AA sequence:RefSeq:WP_013893560.1
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_043766072.1
COORDINATES: similar to AA sequence:RefSeq:WP_043766075.1
COORDINATES: similar to AA sequence:RefSeq:WP_015471495.1
COORDINATES: similar to AA sequence:RefSeq:WP_004514800.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611638.1
COORDINATES: protein motif:HMM:NF012573.2
COORDINATES: similar to AA sequence:RefSeq:WP_019092710.1
COORDINATES: protein motif:HMM:NF025173.2
COORDINATES: protein motif:HMM:NF012257.2
Crp/Fnr family transcriptional regulator
COORDINATES: protein motif:HMM:NF028293.2
COORDINATES: similar to AA sequence:RefSeq:WP_008385337.1
GO:0003905 - alkylbase DNA N-glycosylase activity [Evidence IEA]
GO:0006284 - base-excision repair [Evidence IEA]