Erwinia rhapontici strain BY21311 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Erwiniaceae; Erwinia.
Genome sequence of plant pathogenic bacterial species Erwinia rhapontici
Submitted (21-OCT-2021) Plant Pathology, Hebei Agricultural University, Lekai South street 2596, Baoding, Hebei 071001, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP085628.1.\nBacteria and source DNA available from Jinhui Wang.\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 :: 18-OCT-2021\nAssembly Method :: HGAP v. OCT-2020\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 500.0x\nSequencing Technology :: Oxford Nanopore; Illumina NovaSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/10/2022 09:31:42\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;\n repeat_region\nGenes (total) :: 4,775\nCDSs (total) :: 4,657\nGenes (coding) :: 4,613\nCDSs (with protein) :: 4,613\nGenes (RNA) :: 118\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 82\nncRNAs :: 14\nPseudo Genes (total) :: 44\nCDSs (without protein) :: 44\nPseudo Genes (ambiguous residues) :: 0 of 44\nPseudo Genes (frameshifted) :: 15 of 44\nPseudo Genes (incomplete) :: 29 of 44\nPseudo Genes (internal stop) :: 10 of 44\nPseudo Genes (multiple problems) :: 9 of 44\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_013028017.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017802285.1
COORDINATES: similar to AA sequence:RefSeq:WP_017802087.1
COORDINATES: similar to AA sequence:RefSeq:WP_019105336.1
CmpA/NrtA family ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_017802089.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015414 - ABC-type nitrate transporter activity [Evidence IEA]
GO:0015706 - nitrate transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008107708.1
COORDINATES: similar to AA sequence:RefSeq:WP_012124544.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]; GO:0008942 - nitrite reductase [NAD(P)H] activity [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0042128 - nitrate assimilation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007892845.1
COORDINATES: similar to AA sequence:RefSeq:WP_014543304.1
COORDINATES: similar to AA sequence:RefSeq:WP_014543305.1
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: similar to AA sequence:RefSeq:WP_013196246.1
COORDINATES: similar to AA sequence:RefSeq:WP_003855159.1
COORDINATES: similar to AA sequence:RefSeq:WP_020292348.1
COORDINATES: similar to AA sequence:RefSeq:WP_011168490.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008106169.1
COORDINATES: similar to AA sequence:RefSeq:WP_011095625.1
helix-turn-helix transcriptional regulator
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_001585135.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_015697365.1
COORDINATES: similar to AA sequence:RefSeq:WP_013512050.1
GGDEF domain-containing phosphodiesterase
COORDINATES: similar to AA sequence:RefSeq:WP_017490812.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_008375253.1
COORDINATES: similar to AA sequence:RefSeq:WP_015729960.1
COORDINATES: similar to AA sequence:RefSeq:WP_017490136.1
COORDINATES: similar to AA sequence:RefSeq:WP_017490137.1
COORDINATES: similar to AA sequence:RefSeq:WP_010435568.1
COORDINATES: similar to AA sequence:RefSeq:WP_017392717.1
COORDINATES: similar to AA sequence:RefSeq:WP_014900906.1
COORDINATES: similar to AA sequence:RefSeq:WP_000800153.1
COORDINATES: similar to AA sequence:RefSeq:WP_010244765.1
COORDINATES: similar to AA sequence:RefSeq:WP_012654916.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
This protein belongs to a clade of FMN-dependent monooxygenases, within a broader family of flavin-dependent oxidoreductases, the luciferase-like monooxygenase (LMM) family, some of whose members use coenzyme F420 rather than FMN; Derived by automated computational analysis using gene prediction method: Protein Homology.
NtaA/DmoA family FMN-dependent monooxygenase
COORDINATES: similar to AA sequence:RefSeq:WP_017491774.1
amino acid ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008297617.1
COORDINATES: similar to AA sequence:RefSeq:WP_015689996.1
amino acid ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_005120221.1
MetQ/NlpA family ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_005120223.1
COORDINATES: similar to AA sequence:RefSeq:WP_003242531.1
methionine ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_020303462.1
COORDINATES: similar to AA sequence:RefSeq:WP_013027911.1
COORDINATES: similar to AA sequence:RefSeq:WP_017346689.1
COORDINATES: similar to AA sequence:RefSeq:WP_017892790.1
COORDINATES: similar to AA sequence:RefSeq:WP_012145091.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_017801107.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_013319438.1
COORDINATES: similar to AA sequence:RefSeq:WP_013202003.1
GO:0033744 - L-methionine:thioredoxin-disulfide S-oxidoreductase activity [Evidence IEA]; GO:0008113 - peptide-methionine (S)-S-oxide reductase activity [Evidence IEA]
GO:0030091 - protein repair [Evidence IEA]; GO:0006979 - response to oxidative stress [Evidence IEA]
peptide-methionine (S)-S-oxide reductase MsrA
COORDINATES: similar to AA sequence:RefSeq:WP_004391498.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
DHA2 family efflux MFS transporter permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_004391496.1
COORDINATES: similar to AA sequence:RefSeq:WP_017492057.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014341720.1
COORDINATES: similar to AA sequence:RefSeq:WP_014541847.1
COORDINATES: similar to AA sequence:RefSeq:WP_009351627.1
COORDINATES: similar to AA sequence:RefSeq:WP_007672163.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005225759.1
sugar ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007893773.1
COORDINATES: similar to AA sequence:RefSeq:WP_010260941.1
COORDINATES: protein motif:HMM:NF012245.2
PAS domain-containing methyl-accepting chemotaxis protein
COORDINATES: similar to AA sequence:RefSeq:WP_008432736.1
COORDINATES: similar to AA sequence:RefSeq:WP_019825862.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558178.1
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.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017802205.1
COORDINATES: similar to AA sequence:RefSeq:WP_002209416.1
GO:0036211 - protein modification process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013511693.1
GO:0051920 - peroxiredoxin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017798929.1
GO:0016705 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Evidence IEA]
putative FMN-dependent luciferase-like monooxygenase
COORDINATES: similar to AA sequence:RefSeq:WP_017798930.1
COORDINATES: similar to AA sequence:RefSeq:WP_016496050.1
COORDINATES: similar to AA sequence:RefSeq:WP_017798932.1
COORDINATES: similar to AA sequence:RefSeq:WP_008108822.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
TIGR04028 family ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008484281.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016538036.1
COORDINATES: similar to AA sequence:RefSeq:WP_010100492.1
GO:0016831 - carboxy-lyase activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0019752 - carboxylic acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011113994.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
H-NS family nucleoid-associated regulatory protein
COORDINATES: similar to AA sequence:RefSeq:WP_014598182.1
COORDINATES: similar to AA sequence:RefSeq:WP_032495680.1
COORDINATES: similar to AA sequence:RefSeq:WP_008483151.1
COORDINATES: similar to AA sequence:RefSeq:WP_011614926.1
COORDINATES: similar to AA sequence:RefSeq:WP_014341887.1
COORDINATES: similar to AA sequence:RefSeq:WP_005179224.1
COORDINATES: similar to AA sequence:RefSeq:WP_000023569.1
COORDINATES: similar to AA sequence:RefSeq:WP_017490829.1
COORDINATES: similar to AA sequence:RefSeq:WP_017800157.1
COORDINATES: similar to AA sequence:RefSeq:WP_017800158.1
COORDINATES: similar to AA sequence:RefSeq:WP_017491767.1
COORDINATES: similar to AA sequence:RefSeq:WP_017491768.1
COORDINATES: similar to AA sequence:RefSeq:WP_017490830.1
COORDINATES: similar to AA sequence:RefSeq:WP_017801780.1
COORDINATES: similar to AA sequence:RefSeq:WP_004716861.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016189487.1
COORDINATES: similar to AA sequence:RefSeq:WP_016189488.1
peptidoglycan recognition family protein
COORDINATES: similar to AA sequence:RefSeq:WP_016189489.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
type VI secretion system tube protein Hcp
COORDINATES: similar to AA sequence:RefSeq:WP_018327043.1
PLP-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018041879.1
COORDINATES: similar to AA sequence:RefSeq:WP_000416680.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_002463661.1
COORDINATES: similar to AA sequence:RefSeq:WP_011093319.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00059
TPP riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_006122035.1
COORDINATES: similar to AA sequence:RefSeq:WP_014598218.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0009228 - thiamine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012440521.1
COORDINATES: similar to AA sequence:RefSeq:WP_011078060.1