Aquibium oceanicum strain B7 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Phyllobacteriaceae; Aquibium.
Mesorhizobium oceanicum sp. nov., isolated from deep seawater in South China Sea
Submitted (25-NOV-2016) Ocean College, Zhejiang University, No. 866 Yuhangtang Rd., Hangzhou 310058, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP018172.1.\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 :: SOAPdenovo v. Aug-2016\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina Hiseq 4000 and PacBio RS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 02:30:08\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) :: 5,240\nCDSs (total) :: 5,182\nGenes (coding) :: 5,088\nCDSs (with protein) :: 5,088\nGenes (RNA) :: 58\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 4\nPseudo Genes (total) :: 94\nCDSs (without protein) :: 94\nPseudo Genes (ambiguous residues) :: 0 of 94\nPseudo Genes (frameshifted) :: 43 of 94\nPseudo Genes (incomplete) :: 62 of 94\nPseudo Genes (internal stop) :: 8 of 94\nPseudo Genes (multiple problems) :: 18 of 94\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_009452593.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025114.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
NAD(P)-binding domain-containing protein
COORDINATES: protein motif:HMM:NF024842.2
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_009452595.1
COORDINATES: protein motif:HMM:NF024545.2
GO:0003755 - peptidyl-prolyl cis-trans isomerase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF024853.2
COORDINATES: similar to AA sequence:RefSeq:WP_013532670.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452599.1
COORDINATES: protein motif:HMM:NF016221.2
COORDINATES: similar to AA sequence:RefSeq:WP_009452601.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452602.1
transglutaminase-like cysteine peptidase
COORDINATES: similar to AA sequence:RefSeq:WP_009452603.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578585.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011578586.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011578587.1
COORDINATES: protein motif:HMM:NF015338.2
endonuclease/exonuclease/phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009452608.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009452609.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611490.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009452610.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0003674 - molecular_function [Evidence IEA]
GO:0045861 - negative regulation of proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009452611.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578593.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578595.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578596.1
COORDINATES: similar to AA sequence:RefSeq:WP_012092648.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578598.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011578599.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452616.1
heparan-alpha-glucosaminide N-acetyltransferase
COORDINATES: protein motif:HMM:NF017262.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611472.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF033814.1
GO:0042597 - periplasmic space [Evidence IEA]
GO:0005507 - copper ion binding [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
copper homeostasis periplasmic binding protein CopC
COORDINATES: similar to AA sequence:RefSeq:WP_007010765.1
COORDINATES: similar to AA sequence:RefSeq:WP_007010764.1
COORDINATES: similar to AA sequence:RefSeq:WP_008839872.1
COORDINATES: similar to AA sequence:RefSeq:WP_003612104.1
COORDINATES: similar to AA sequence:RefSeq:WP_007010344.1
COORDINATES: similar to AA sequence:RefSeq:WP_012606191.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982962.1
COORDINATES: similar to AA sequence:RefSeq:WP_014132003.1
COORDINATES: similar to AA sequence:RefSeq:WP_011579020.1
COORDINATES: protein motif:HMM:NF037832.2
COORDINATES: protein motif:HMM:NF016167.2
COORDINATES: similar to AA sequence:RefSeq:WP_011579021.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_011579023.1
COORDINATES: similar to AA sequence:RefSeq:WP_010398890.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
antitoxin of toxin-antitoxin stability system
COORDINATES: similar to AA sequence:RefSeq:WP_006339550.1
COORDINATES: protein motif:HMM:NF025447.2
COORDINATES: similar to AA sequence:RefSeq:WP_006339540.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578616.1
COORDINATES: similar to AA sequence:RefSeq:WP_014858018.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578681.1
COORDINATES: similar to AA sequence:RefSeq:WP_003576942.1
COORDINATES: similar to AA sequence:RefSeq:WP_007634817.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_017992472.1
COORDINATES: similar to AA sequence:RefSeq:WP_006339497.1
COORDINATES: similar to AA sequence:RefSeq:WP_003535142.1
COORDINATES: similar to AA sequence:RefSeq:WP_006339488.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505303.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578627.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011578628.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578629.1
COORDINATES: protein motif:HMM:NF017524.2
plasmid mobilization relaxosome protein MobC
COORDINATES: similar to AA sequence:RefSeq:WP_011578631.1
COORDINATES: protein motif:HMM:NF024835.2
COORDINATES: similar to AA sequence:RefSeq:WP_011578634.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011578635.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008839778.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578637.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_013845309.1
COORDINATES: protein motif:HMM:NF016491.2
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015241458.1
COORDINATES: similar to AA sequence:RefSeq:WP_014531074.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578641.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011578642.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_014531077.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_016555384.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982847.1
COORDINATES: similar to AA sequence:RefSeq:WP_013845318.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578647.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578651.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578652.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011578653.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578654.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_016920730.1
COORDINATES: similar to AA sequence:RefSeq:WP_016555656.1
COORDINATES: similar to AA sequence:RefSeq:WP_007010060.1
COORDINATES: similar to AA sequence:RefSeq:WP_003523563.1
COORDINATES: similar to AA sequence:RefSeq:WP_006325699.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011579007.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008878427.1
COORDINATES: similar to AA sequence:RefSeq:WP_006204737.1
COORDINATES: similar to AA sequence:RefSeq:WP_008878431.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578677.1
COORDINATES: similar to AA sequence:RefSeq:WP_014857716.1
COORDINATES: similar to AA sequence:RefSeq:WP_009469622.1
GO:0015074 - DNA integration [Evidence IEA]
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_007602724.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014763446.1
COORDINATES: similar to AA sequence:RefSeq:WP_014763445.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824503.1
DsbE family thiol:disulfide interchange protein
COORDINATES: similar to AA sequence:RefSeq:WP_008877241.1
COORDINATES: similar to AA sequence:RefSeq:WP_008877240.1
COORDINATES: similar to AA sequence:RefSeq:WP_012483839.1
COORDINATES: similar to AA sequence:RefSeq:WP_006329634.1
COORDINATES: similar to AA sequence:RefSeq:WP_005613353.1
GO:0017004 - cytochrome complex assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007696236.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820244.1
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_012553060.1
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_011982997.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003532417.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013832.2
COORDINATES: protein motif:HMM:NF012264.2
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF021214.2
COORDINATES: similar to AA sequence:RefSeq:WP_009797884.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611442.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_006023179.1
COORDINATES: similar to AA sequence:RefSeq:WP_007407000.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827356.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF025079.2
COORDINATES: similar to AA sequence:RefSeq:WP_011578872.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011315546.1
COORDINATES: similar to AA sequence:RefSeq:WP_006328591.1
COORDINATES: similar to AA sequence:RefSeq:WP_010913782.1
COORDINATES: similar to AA sequence:RefSeq:WP_015318622.1
COORDINATES: similar to AA sequence:RefSeq:WP_010400577.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011084389.1
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: similar to AA sequence:RefSeq:WP_076612218.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212886.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820115.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120864.1
COORDINATES: similar to AA sequence:RefSeq:WP_014131971.1
COORDINATES: protein motif:HMM:NF020123.2
COORDINATES: similar to AA sequence:RefSeq:WP_011511393.1
COORDINATES: similar to AA sequence:RefSeq:WP_006200433.1
COORDINATES: similar to AA sequence:RefSeq:WP_006202568.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
cytochrome b N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011578876.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578877.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011578878.1
COORDINATES: protein motif:HMM:TIGR00546.1
GO:0016410 - N-acyltransferase activity [Evidence IEA]
GO:0042158 - lipoprotein biosynthetic process [Evidence IEA]; GO:0006497 - protein lipidation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011578570.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578571.1
COORDINATES: protein motif:HMM:NF016062.2
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009452979.1
manganese efflux pump MntP family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009453085.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452592.1
rRNA adenine N-6-methyltransferase family protein