Yersinia similis strain Y_sim_228 plasmid unnamed, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Yersinia.
Genome Sequence of Yersinia similis Y228T, a Member of the Yersinia pseudotuberculosis Complex
Submitted (19-FEB-2014) Institut fuer bakterielle Infektionen und Zoonosen, Friedrich-Loeffler-Institut, Naumburger Str. 96a, Jena 07743, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP007231.1.\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##Assembly-Data-START##\nAssembly Method :: BioEdit v. 06022014\nSequencing Technology :: PacBio\n##Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/14/2022 11:31:19\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) :: 4,522\nCDSs (total) :: 4,404\nGenes (coding) :: 4,193\nCDSs (with protein) :: 4,193\nGenes (RNA) :: 118\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 87\nncRNAs :: 9\nPseudo Genes (total) :: 211\nCDSs (without protein) :: 211\nPseudo Genes (ambiguous residues) :: 0 of 211\nPseudo Genes (frameshifted) :: 73 of 211\nPseudo Genes (incomplete) :: 163 of 211\nPseudo Genes (internal stop) :: 32 of 211\nPseudo Genes (multiple problems) :: 47 of 211\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0019867 - outer membrane [Evidence IEA]
GO:0009297 - pilus assembly [Evidence IEA]; GO:0009306 - protein secretion [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
PilN family type IVB pilus formation outer membrane protein
COORDINATES: protein motif:HMM:NF019064.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF022136.2
toxin co-regulated pilus biosynthesis Q family protein
COORDINATES: protein motif:HMM:NF014417.2
COORDINATES: protein motif:HMM:NF019886.2
sigma-70 region 4 domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011100764.1
COORDINATES: similar to AA sequence:RefSeq:WP_002354621.1
Hcp family type VI secretion system effector
COORDINATES: similar to AA sequence:RefSeq:WP_000217401.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
group II intron reverse transcriptase/maturase
COORDINATES: similar to AA sequence:RefSeq:WP_017412717.1
COORDINATES: similar to AA sequence:RefSeq:WP_017104216.1
COORDINATES: similar to AA sequence:RefSeq:WP_017162391.1
COORDINATES: similar to AA sequence:RefSeq:WP_019456402.1
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: similar to AA sequence:RefSeq:WP_012592916.1
COORDINATES: similar to AA sequence:RefSeq:WP_009639336.1
COORDINATES: similar to AA sequence:RefSeq:WP_000108571.1
COORDINATES: similar to AA sequence:RefSeq:WP_004144449.1
COORDINATES: protein motif:HMM:NF022728.2
COORDINATES: similar to AA sequence:RefSeq:WP_006708727.1
COORDINATES: similar to AA sequence:RefSeq:WP_002214787.1
type II toxin-antitoxin system MqsR family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_008215143.1
type II toxin-antitoxin system MqsA family antitoxin
COORDINATES: protein motif:HMM:NF015205.2
COORDINATES: similar to AA sequence:RefSeq:WP_015873526.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873284.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015873824.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: similar to AA sequence:RefSeq:WP_004117848.1
COORDINATES: similar to AA sequence:RefSeq:WP_001776119.1
COORDINATES: similar to AA sequence:RefSeq:WP_012738252.1
COORDINATES: similar to AA sequence:RefSeq:WP_016857857.1
thioredoxin fold domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006707032.1
plasmid IncI1-type surface exclusion protein ExcA
COORDINATES: similar to AA sequence:RefSeq:WP_016857861.1
COORDINATES: protein motif:HMM:NF033887.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873074.1
COORDINATES: similar to AA sequence:RefSeq:WP_017891136.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873079.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873080.1
COORDINATES: protein motif:HMM:NF033885.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873082.1
COORDINATES: similar to AA sequence:RefSeq:WP_017891141.1
COORDINATES: similar to AA sequence:RefSeq:WP_017374626.1
COORDINATES: similar to AA sequence:RefSeq:WP_000735118.1
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_015873087.1
COORDINATES: similar to AA sequence:RefSeq:WP_020325433.1
COORDINATES: similar to AA sequence:RefSeq:WP_004131835.1
type IV secretion system DotC family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004720812.1
Members of this family include DotD of type IVB secretion systems and TraH of plasmid conjugative plasmid systems, both lipoproteins; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF016785.2
shufflon system plasmid conjugative transfer pilus tip adhesin PilV
COORDINATES: protein motif:HMM:NF013632.2
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004720806.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017374636.1
COORDINATES: similar to AA sequence:RefSeq:WP_017374637.1
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017374638.1
COORDINATES: protein motif:HMM:TIGR03021.1
GO:0009297 - pilus assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF018562.2