Rubrobacter marinus strain SCSIO 52915 plasmid unnamed1, complete sequence.
Bacteria; Actinobacteria; Rubrobacteria; Rubrobacterales; Rubrobacteraceae; Rubrobacter.
Rubrobacter sp nov SCSIO 52915 isolated from a deep-sea sediment in the South China Sea
Submitted (11-OCT-2019) CAS Key Laboratory of Tropical Marine Bio-resources and Ecology; Guangdong Key Laboratory of Marine Materia Medica, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 164 Xingang West Road, Guangzhou, Guangdong 510301, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP045122.1.\nBacteria and source DNA available from XP TIAN.\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 :: Celera Assembler v. 8.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 259.0x\nSequencing Technology :: Illumina HiSeq 4000\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/24/2022 01:30:30\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,630\nCDSs (total) :: 4,577\nGenes (coding) :: 4,441\nCDSs (with protein) :: 4,441\nGenes (RNA) :: 53\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 2\nPseudo Genes (total) :: 136\nCDSs (without protein) :: 136\nPseudo Genes (ambiguous residues) :: 0 of 136\nPseudo Genes (frameshifted) :: 53 of 136\nPseudo Genes (incomplete) :: 88 of 136\nPseudo Genes (internal stop) :: 5 of 136\nPseudo Genes (multiple problems) :: 10 of 136\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013073.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
peptidoglycan DD-metalloendopeptidase family protein
COORDINATES: protein motif:HMM:NF013618.2
COORDINATES: protein motif:HMM:NF024254.2
COORDINATES: protein motif:HMM:NF024108.2
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018111685.1
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:NF013736.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015189063.1
COORDINATES: protein motif:HMM:NF015022.2
COORDINATES: protein motif:HMM:NF021637.2
COORDINATES: protein motif:HMM:NF023069.2
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: protein motif:HMM:TIGR02937.1
COORDINATES: similar to AA sequence:RefSeq:WP_014067952.1
COORDINATES: similar to AA sequence:RefSeq:WP_015049417.1
ribbon-helix-helix domain-containing protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:TIGR01131.1
GO:0000276 - mitochondrial proton-transporting ATP synthase complex, coupling factor F(o) [Evidence IEA]; GO:0045264 - plasma membrane proton-transporting ATP synthase complex, coupling factor F(o) [Evidence IEA]; GO:0045263 - proton-transporting ATP synthase complex, coupling factor F(o) [Evidence IEA]
GO:0046933 - proton-transporting ATP synthase activity, rotational mechanism [Evidence IEA]
GO:0015986 - proton motive force-driven ATP synthesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004375692.1
COORDINATES: protein motif:HMM:NF016119.2
COORDINATES: protein motif:HMM:TIGR00544.1
GO:0008961 - phosphatidylglycerol-prolipoprotein diacylglyceryl transferase activity [Evidence IEA]
GO:0009249 - protein lipoylation [Evidence IEA]
prolipoprotein diacylglyceryl transferase
COORDINATES: similar to AA sequence:RefSeq:WP_011565721.1
COORDINATES: protein motif:HMM:TIGR01076.1
COORDINATES: protein motif:HMM:NF013700.2
COORDINATES: similar to AA sequence:RefSeq:WP_013489638.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009415.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011564121.1
COORDINATES: protein motif:HMM:NF016202.2
peptidoglycan binding domain-containing protein
COORDINATES: protein motif:HMM:NF023418.2
DUF3488 and transglutaminase-like domain-containing protein
COORDINATES: protein motif:HMM:NF014566.2
type II CAAX endopeptidase family protein
COORDINATES: protein motif:HMM:NF013080.2
GO:0008484 - sulfuric ester hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF019403.2
heparan-alpha-glucosaminide N-acetyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_011341725.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025013.2
COORDINATES: protein motif:HMM:NF024206.2
ankyrin repeat domain-containing protein
COORDINATES: protein motif:HMM:NF015658.2
COORDINATES: similar to AA sequence:RefSeq:WP_009154764.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007491859.1
COORDINATES: protein motif:HMM:NF033788.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_011306234.1
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_017824222.1
four-helix bundle copper-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_015451109.1
metal-sensitive transcriptional regulator
COORDINATES: protein motif:HMM:NF024880.2
COORDINATES: similar to AA sequence:RefSeq:WP_003242925.1
COORDINATES: protein motif:HMM:NF014624.2
COORDINATES: similar to AA sequence:RefSeq:WP_008591150.1
COORDINATES: protein motif:HMM:TIGR01409.1
twin-arginine translocation signal domain-containing protein
COORDINATES: protein motif:HMM:NF019352.2
GO:0005507 - copper ion binding [Evidence IEA]
multicopper oxidase domain-containing protein
COORDINATES: protein motif:HMM:NF012612.2
COORDINATES: protein motif:HMM:NF019351.2
GO:0005507 - copper ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011563127.1
COORDINATES: protein motif:HMM:NF012566.2
heavy metal-binding domain-containing protein
COORDINATES: protein motif:HMM:NF012373.2
COORDINATES: similar to AA sequence:RefSeq:WP_020404897.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827256.1
GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
GO:0042773 - ATP synthesis coupled electron transport [Evidence IEA]
NADH-quinone oxidoreductase subunit NuoK
COORDINATES: similar to AA sequence:RefSeq:WP_008169449.1
proton-conducting transporter membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008930121.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827253.1
COORDINATES: similar to AA sequence:RefSeq:WP_003981763.1
COORDINATES: similar to AA sequence:RefSeq:WP_018404633.1
COORDINATES: similar to AA sequence:RefSeq:WP_007939310.1
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: similar to AA sequence:RefSeq:WP_015231623.1
COORDINATES: protein motif:HMM:NF024676.2
COORDINATES: protein motif:HMM:NF017262.2
COORDINATES: protein motif:HMM:NF016149.2
GO:0042597 - periplasmic space [Evidence IEA]
COORDINATES: protein motif:HMM:NF019599.2
COORDINATES: similar to AA sequence:RefSeq:WP_003387450.1
COORDINATES: similar to AA sequence:RefSeq:WP_011248228.1
COORDINATES: similar to AA sequence:RefSeq:WP_005983215.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011563579.1
COORDINATES: protein motif:HMM:NF022747.2
CPBP family intramembrane metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_011563590.1
trypsin-like peptidase domain-containing protein
COORDINATES: protein motif:HMM:TIGR03423.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF014703.2
COORDINATES: protein motif:HMM:NF012780.2
COORDINATES: similar to AA sequence:RefSeq:WP_013130707.1
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: protein motif:HMM:NF016107.2
COORDINATES: similar to AA sequence:RefSeq:WP_005362597.1
COORDINATES: protein motif:HMM:NF013715.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012791.2
COORDINATES: protein motif:HMM:NF012575.2
COORDINATES: similar to AA sequence:RefSeq:WP_019989950.1
COORDINATES: similar to AA sequence:RefSeq:WP_012873583.1
COORDINATES: protein motif:HMM:NF015956.2
metal-dependent transcriptional regulator
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_010696162.1
COORDINATES: protein motif:HMM:NF021039.2
COORDINATES: protein motif:HMM:NF014582.2
COORDINATES: similar to AA sequence:RefSeq:WP_011542853.1
COORDINATES: protein motif:HMM:TIGR01511.1
COORDINATES: similar to AA sequence:RefSeq:WP_011874377.1
COORDINATES: protein motif:HMM:NF016232.2
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004512069.1
vitamin B12-dependent ribonucleotide reductase
COORDINATES: protein motif:HMM:NF012298.2
GO:0004672 - protein kinase activity [Evidence IEA]
GO:0006468 - protein phosphorylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF027602.2
COORDINATES: similar to AA sequence:RefSeq:WP_011563041.1
COORDINATES: similar to AA sequence:RefSeq:WP_014464983.1
GO:0008821 - crossover junction endodeoxyribonuclease activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
crossover junction endodeoxyribonuclease RuvC
COORDINATES: protein motif:HMM:NF040105.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
WecB/TagA/CpsF family glycosyltransferase
COORDINATES: protein motif:HMM:NF015935.2
COORDINATES: similar to AA sequence:RefSeq:WP_012692189.1
COORDINATES: similar to AA sequence:RefSeq:WP_018196833.1
GO:0008324 - cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012945285.1
GO:0008168 - methyltransferase activity [Evidence IEA]
methyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020575735.1
phenylacetate--CoA ligase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009493545.1
GO:0004803 - transposase activity [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013094.2
GO:0008641 - ubiquitin-like modifier activating enzyme activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025819.2
COORDINATES: protein motif:HMM:TIGR00663.1
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: protein motif:HMM:NF012234.2
COORDINATES: protein motif:HMM:TIGR00594.1
COORDINATES: protein motif:HMM:NF014826.2
COORDINATES: protein motif:HMM:TIGR00498.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0006282 - regulation of DNA repair [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF024685.2
COORDINATES: similar to AA sequence:RefSeq:WP_009488609.1
COORDINATES: protein motif:HMM:NF016362.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: protein motif:HMM:NF024977.2
COORDINATES: protein motif:HMM:NF024117.2
COORDINATES: protein motif:HMM:NF012492.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF012372.2
COORDINATES: protein motif:HMM:TIGR00632.1
COORDINATES: protein motif:HMM:NF016764.2
COORDINATES: similar to AA sequence:RefSeq:WP_011563044.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF025744.2
COORDINATES: protein motif:HMM:NF025186.2
COORDINATES: protein motif:HMM:NF018028.2