Cytobacillus solani strain F27 plasmid unnamed, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Cytobacillus.
Bacterial competition corelates with biosynthetic potential among closely related bacteria
Submitted (19-OCT-2021) College of Resources and Environment, Huazhong Agricultural University, Shizishan Street 1, Wuhan 430070, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP085713.1.\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 :: 17-APR-2019\nAssembly Method :: CANU v. 1.7.11\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 432x\nSequencing Technology :: Oxford Nanopore GridION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 06/26/2023 02:53:30\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) :: 5,595\nCDSs (total) :: 5,415\nGenes (coding) :: 5,272\nCDSs (with protein) :: 5,272\nGenes (RNA) :: 180\nrRNAs :: 13, 13, 13 (5S, 16S, 23S)\ncomplete rRNAs :: 13, 13, 13 (5S, 16S, 23S)\ntRNAs :: 136\nncRNAs :: 5\nPseudo Genes (total) :: 143\nCDSs (without protein) :: 143\nPseudo Genes (ambiguous residues) :: 0 of 143\nPseudo Genes (frameshifted) :: 72 of 143\nPseudo Genes (incomplete) :: 84 of 143\nPseudo Genes (internal stop) :: 41 of 143\nPseudo Genes (multiple problems) :: 47 of 143\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:NF024959.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
PQQ-binding-like beta-propeller repeat protein
COORDINATES: protein motif:HMM:NF016763.2
GO:0005576 - extracellular region [Evidence IEA]
GO:0071555 - cell wall organization [Evidence IEA]; GO:0046677 - response to antibiotic [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006679353.1
GO:0050797 - thymidylate synthase (FAD) activity [Evidence IEA]
GO:0009265 - 2'-deoxyribonucleotide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018705798.1
GO:0008233 - peptidase activity [Evidence IEA]; GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF028245.2
COORDINATES: protein motif:HMM:NF040151.1
COORDINATES: similar to AA sequence:RefSeq:WP_019382355.1
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_011198424.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00379
cyclic di-AMP (ydaO/yuaA leader) riboswitch senses the signaling molecule cyclic di-AMP; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_014458668.1
GO:0006813 - potassium ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009329440.1
GO:0015379 - potassium:chloride symporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_063260745.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; 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_007499474.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019153705.1
COORDINATES: similar to AA sequence:RefSeq:WP_019259295.1
COORDINATES: protein motif:HMM:NF012655.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006806367.1
COORDINATES: protein motif:HMM:NF025442.2
COORDINATES: similar to AA sequence:RefSeq:WP_016085153.1
COORDINATES: similar to AA sequence:RefSeq:WP_000158218.1
COORDINATES: similar to AA sequence:RefSeq:WP_015592078.1
COORDINATES: protein motif:HMM:NF039499.1
COORDINATES: similar to AA sequence:RefSeq:WP_015983473.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:TIGR00254.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0005525 - GTP binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF017832.2
COORDINATES: protein motif:HMM:NF013252.2
COORDINATES: similar to AA sequence:RefSeq:WP_002350974.1
GO:0015074 - DNA integration [Evidence IEA]
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_016205446.1
COORDINATES: similar to AA sequence:RefSeq:WP_004434430.1
COORDINATES: protein motif:HMM:NF015513.2
COORDINATES: similar to AA sequence:RefSeq:WP_012961189.1
COORDINATES: similar to AA sequence:RefSeq:WP_000687343.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: similar to AA sequence:RefSeq:WP_016113698.1
GO:0015293 - symporter activity [Evidence IEA]
GO:0032329 - serine transport [Evidence IEA]; GO:0015826 - threonine transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019381046.1
COORDINATES: similar to AA sequence:RefSeq:WP_009676406.1
GO:0004609 - phosphatidylserine decarboxylase activity [Evidence IEA]
GO:0008654 - phospholipid biosynthetic process [Evidence IEA]
Phosphatidylserine decarboxylase is synthesized as a single chain precursor. Generation of the pyruvoyl active site from a Ser is coupled to cleavage of a Gly-Ser bond between the larger (beta) and smaller (alpha chains). It is an integral membrane protein.; Phosphatidylserine decarboxylase is synthesized as a single chain precursor. Generation of the pyruvoyl active site from a Ser is coupled to cleavage of a Gly-Ser bond between the larger (beta) and smaller (alpha chains). It is an integral membrane protein; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016819538.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0043546 - molybdopterin cofactor binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009589680.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
YggS family pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_014372038.1
COORDINATES: similar to AA sequence:RefSeq:WP_007431054.1
GO:0009058 - biosynthetic process [Evidence IEA]
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_007429650.1
GO:0031071 - cysteine desulfurase activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0006534 - cysteine metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016090028.1
GO:0042286 - glutamate-1-semialdehyde 2,1-aminomutase activity [Evidence IEA]
GO:0006779 - porphyrin-containing compound biosynthetic process [Evidence IEA]
glutamate-1-semialdehyde 2,1-aminomutase
internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
aminotransferase class V-fold PLP-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_018706502.1
GO:0008902 - hydroxymethylpyrimidine kinase activity [Evidence IEA]; GO:0008972 - phosphomethylpyrimidine kinase activity [Evidence IEA]
GO:0009228 - thiamine biosynthetic process [Evidence IEA]
bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_019635474.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016095015.1
GO:0006313 - DNA transposition [Evidence IEA]
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.
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: protein motif:HMM:NF020253.2
glycine cleavage T C-terminal barrel domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010650852.1
GO:0004375 - glycine dehydrogenase (decarboxylating) activity [Evidence IEA]
GO:0006546 - glycine catabolic process [Evidence IEA]
aminomethyl-transferring glycine dehydrogenase subunit GcvPA
COORDINATES: similar to AA sequence:RefSeq:WP_017186703.1
aminomethyl-transferring glycine dehydrogenase subunit GcvPB
COORDINATES: similar to AA sequence:RefSeq:WP_011245311.1
PLP-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003728355.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
pyridoxal 5'-phosphate synthase lyase subunit PdxS
COORDINATES: similar to AA sequence:RefSeq:WP_000238781.1
GO:0016884 - carbon-nitrogen ligase activity, with glutamine as amido-N-donor [Evidence IEA]
GO:0042823 - pyridoxal phosphate biosynthetic process [Evidence IEA]
pyridoxal 5'-phosphate synthase glutaminase subunit PdxT
COORDINATES: similar to AA sequence:RefSeq:WP_003351945.1
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: protein motif:HMM:TIGR01128.1
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003150899.1
COORDINATES: similar to AA sequence:RefSeq:WP_018934168.1
GO:0016491 - oxidoreductase activity [Evidence IEA]; GO:0008998 - ribonucleoside-triphosphate reductase activity [Evidence IEA]
anaerobic ribonucleoside-triphosphate reductase
COORDINATES: similar to AA sequence:RefSeq:WP_018934167.1
4Fe-4S cluster-binding domain-containing protein
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015594447.1
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:0015413 - ABC-type nickel transporter activity [Evidence IEA]; GO:0016151 - nickel cation binding [Evidence IEA]
GO:0015675 - nickel cation transport [Evidence IEA]
nickel ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_003183800.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015413 - ABC-type nickel transporter activity [Evidence IEA]
nickel ABC transporter permease subunit NikB
COORDINATES: similar to AA sequence:RefSeq:WP_015594445.1
nickel ABC transporter permease subunit NikC
COORDINATES: similar to AA sequence:RefSeq:WP_015594444.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]; GO:0009898 - cytoplasmic side of plasma membrane [Evidence IEA]
GO:0015413 - ABC-type nickel transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013056425.1
COORDINATES: similar to AA sequence:RefSeq:WP_015594442.1
GO:0042910 - xenobiotic transmembrane transporter activity [Evidence IEA]
GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003329394.1
COORDINATES: similar to AA sequence:RefSeq:WP_000926951.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009336720.1
COORDINATES: similar to AA sequence:RefSeq:WP_000686752.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017152448.1
COORDINATES: similar to AA sequence:RefSeq:WP_003389625.1
GO:0004721 - phosphoprotein phosphatase activity [Evidence IEA]; GO:0004725 - protein tyrosine phosphatase activity [Evidence IEA]
GO:0006470 - protein dephosphorylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: similar to AA sequence:RefSeq:WP_000792740.1
COORDINATES: similar to AA sequence:RefSeq:WP_019241550.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009335869.1
COORDINATES: similar to AA sequence:RefSeq:WP_017795649.1
COORDINATES: similar to AA sequence:RefSeq:WP_009371356.1
COORDINATES: similar to AA sequence:RefSeq:NP_387892.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014642997.1
COORDINATES: similar to AA sequence:RefSeq:WP_004231702.1
COORDINATES: similar to AA sequence:RefSeq:WP_008175349.1
GO:0005215 - transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013088.2
COORDINATES: similar to AA sequence:RefSeq:WP_018758067.1
COORDINATES: similar to AA sequence:RefSeq:WP_009370420.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018759980.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF039823.1
COORDINATES: similar to AA sequence:RefSeq:WP_012961021.1
COORDINATES: similar to AA sequence:RefSeq:WP_001261142.1
COORDINATES: similar to AA sequence:RefSeq:WP_001072299.1
COORDINATES: similar to AA sequence:RefSeq:WP_012576008.1
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.
RHS repeat-associated core domain-containing protein
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: similar to AA sequence:RefSeq:WP_003250528.1
COORDINATES: protein motif:HMM:NF014471.2
GO:0015109 - chromate transmembrane transporter activity [Evidence IEA]
GO:0015703 - chromate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008687584.1
COORDINATES: similar to AA sequence:RefSeq:WP_018393278.1
COORDINATES: similar to AA sequence:RefSeq:WP_018393277.1
COORDINATES: similar to AA sequence:RefSeq:WP_008177302.1
COORDINATES: similar to AA sequence:RefSeq:WP_016089814.1
reverse transcriptase domain-containing protein
COORDINATES: protein motif:HMM:NF020540.2
sporulation histidine kinase inhibitor Sda
COORDINATES: similar to AA sequence:RefSeq:WP_000418884.1
COORDINATES: similar to AA sequence:RefSeq:WP_000566232.1
COORDINATES: protein motif:HMM:NF025388.2
COORDINATES: similar to AA sequence:RefSeq:WP_006286220.1
COORDINATES: similar to AA sequence:RefSeq:WP_018707321.1
COORDINATES: similar to AA sequence:RefSeq:WP_018707322.1
COORDINATES: protein motif:HMM:NF022659.2
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007915276.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611142.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002090380.1
COORDINATES: similar to AA sequence:RefSeq:WP_002090508.1
GO:0043565 - sequence-specific DNA binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF024673.2
COORDINATES: similar to AA sequence:RefSeq:WP_000771488.1
COORDINATES: similar to AA sequence:RefSeq:WP_001177627.1
COORDINATES: similar to AA sequence:RefSeq:WP_019635315.1
COORDINATES: similar to AA sequence:RefSeq:WP_002204084.1
GO:0036211 - protein modification process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015374821.1
COORDINATES: protein motif:HMM:NF012371.2
COORDINATES: protein motif:HMM:NF037393.2
COORDINATES: similar to AA sequence:RefSeq:WP_018885563.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: similar to AA sequence:RefSeq:WP_009371657.1
COORDINATES: similar to AA sequence:RefSeq:WP_004230372.1
COORDINATES: similar to AA sequence:RefSeq:WP_017426071.1
COORDINATES: similar to AA sequence:RefSeq:WP_015187148.1
COORDINATES: similar to AA sequence:RefSeq:WP_009334067.1
GO:0030552 - cAMP binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007716624.1
COORDINATES: similar to AA sequence:RefSeq:WP_016821985.1
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_002926634.1
COORDINATES: similar to AA sequence:RefSeq:WP_015737939.1
GO:0009847 - spore germination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008180822.1
COORDINATES: similar to AA sequence:RefSeq:WP_016132392.1
Ger(x)C family spore germination protein
COORDINATES: similar to AA sequence:RefSeq:WP_000910314.1
COORDINATES: similar to AA sequence:RefSeq:WP_000369880.1
COORDINATES: similar to AA sequence:RefSeq:WP_002130770.1
GO:0003676 - nucleic acid binding [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]; GO:0001072 - transcription antitermination factor activity, RNA binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF025159.2
COORDINATES: similar to AA sequence:RefSeq:WP_012294214.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0050136 - NADH dehydrogenase (quinone) activity [Evidence IEA]; GO:0008753 - NADPH dehydrogenase (quinone) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001209317.1
COORDINATES: similar to AA sequence:RefSeq:WP_019120041.1
COORDINATES: similar to AA sequence:RefSeq:WP_014462104.1
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_000854138.1
COORDINATES: similar to AA sequence:RefSeq:WP_001004643.1
COORDINATES: similar to AA sequence:RefSeq:WP_006836832.1
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: protein motif:HMM:NF025107.2
COORDINATES: similar to AA sequence:RefSeq:WP_005543846.1
COORDINATES: similar to AA sequence:RefSeq:WP_006783950.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: protein motif:HMM:NF019348.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014045.2
COORDINATES: protein motif:HMM:NF012514.2
COORDINATES: similar to AA sequence:RefSeq:WP_014823702.1
COORDINATES: protein motif:HMM:NF018633.2
COORDINATES: protein motif:HMM:NF025186.2
COORDINATES: protein motif:HMM:NF024108.2
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018765759.1
GO:0000166 - nucleotide binding [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]
COORDINATES: protein motif:HMM:NF024803.2
COORDINATES: similar to AA sequence:RefSeq:WP_019005928.1
COORDINATES: similar to AA sequence:RefSeq:WP_012961130.1
COORDINATES: similar to AA sequence:RefSeq:WP_015256745.1
COORDINATES: protein motif:HMM:NF024702.2
COORDINATES: protein motif:HMM:TIGR01671.1
COORDINATES: protein motif:HMM:NF024710.2