Skermanella rosea strain KEMB 2255-458 plasmid pSR-4, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Rhodospirillales; Azospirillaceae; Skermanella.
Submitted (28-OCT-2021) Bio Health Science, Changwon National University, Changwondaero, Changwon, Gyeongnam 51140, South Korea
Submitted (26-JAN-2021) Bio Health Science, Changwon National University, Changwondaero, Changwon, Gyeongnam 51140, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP086115.1.\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 :: SPAdes v. v0.4.9b\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 917.0x\nSequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/27/2022 06:30:07\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) :: 7,311\nCDSs (total) :: 7,224\nGenes (coding) :: 7,108\nCDSs (with protein) :: 7,108\nGenes (RNA) :: 87\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 61\nncRNAs :: 5\nPseudo Genes (total) :: 116\nCDSs (without protein) :: 116\nPseudo Genes (ambiguous residues) :: 0 of 116\nPseudo Genes (frameshifted) :: 24 of 116\nPseudo Genes (incomplete) :: 101 of 116\nPseudo Genes (internal stop) :: 10 of 116\nPseudo Genes (multiple problems) :: 17 of 116\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0044423 - virion component [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0019068 - virion assembly [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
phage major tail protein, TP901-1 family
COORDINATES: protein motif:HMM:NF022810.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010033336.1
COORDINATES: protein motif:HMM:TIGR01563.1
COORDINATES: protein motif:HMM:TIGR02215.1
GO:0016032 - viral process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012973462.1
COORDINATES: protein motif:HMM:TIGR01554.2
COORDINATES: protein motif:HMM:NF016471.2
GO:0008233 - peptidase activity [Evidence IEA]; GO:0005198 - structural molecule activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016148.2
COORDINATES: similar to AA sequence:RefSeq:WP_019236695.1
COORDINATES: protein motif:HMM:NF036421.2
COORDINATES: protein motif:HMM:NF040428.1
COORDINATES: protein motif:HMM:NF025840.2
DarT ssDNA thymidine ADP-ribosyltransferase family protein
COORDINATES: protein motif:HMM:NF018785.2
COORDINATES: similar to AA sequence:RefSeq:WP_020474202.1
COORDINATES: protein motif:HMM:NF018101.2
COORDINATES: protein motif:HMM:NF017578.2
COORDINATES: similar to AA sequence:RefSeq:WP_002715741.1
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:NF017386.2
SANT/Myb-like DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017307275.1
COORDINATES: similar to AA sequence:RefSeq:WP_007438323.1
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: similar to AA sequence:RefSeq:WP_006027867.1
COORDINATES: protein motif:HMM:NF013324.2
COORDINATES: similar to AA sequence:RefSeq:WP_018301772.1
helix-turn-helix transcriptional regulator
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_001064713.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0009036 - type II site-specific deoxyribonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
BsuBI/PstI family type II restriction endonuclease
COORDINATES: similar to AA sequence:RefSeq:WP_016056570.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
Eco57I restriction-modification methylase domain-containing protein
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF016957.2
VirB3 family type IV secretion system protein
COORDINATES: protein motif:HMM:NF015118.2
COORDINATES: protein motif:HMM:NF019608.2
COORDINATES: protein motif:HMM:NF033894.1
COORDINATES: protein motif:HMM:NF016491.2
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: protein motif:HMM:NF015487.2
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:NF013043.2
COORDINATES: protein motif:HMM:TIGR02788.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF020332.2
COORDINATES: similar to AA sequence:RefSeq:WP_011930849.1
COORDINATES: similar to AA sequence:RefSeq:WP_020190235.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011512324.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: protein motif:HMM:NF019416.2
COORDINATES: similar to AA sequence:RefSeq:WP_012562694.1
COORDINATES: similar to AA sequence:RefSeq:WP_015930158.1
COORDINATES: similar to AA sequence:RefSeq:WP_014529514.1
COORDINATES: protein motif:HMM:NF014941.2
endonuclease VII domain-containing protein
COORDINATES: protein motif:HMM:NF014273.2
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01453.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578674.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF015354.2
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017999896.1
COORDINATES: protein motif:HMM:NF013964.2
HNH endonuclease signature motif containing protein
COORDINATES: protein motif:HMM:NF024108.2
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: protein motif:HMM:NF018095.2
COORDINATES: similar to AA sequence:RefSeq:WP_007372855.1
COORDINATES: protein motif:HMM:NF024120.2
glycosyl hydrolase family 28-related protein
COORDINATES: similar to AA sequence:RefSeq:WP_014190010.1
RNA-guided endonuclease TnpB family protein
COORDINATES: protein motif:HMM:NF024220.2
COORDINATES: protein motif:HMM:NF040129.1