Enterococcus gilvus strain CR1 plasmid pCR1B, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae; Enterococcus.
Complete Genome Sequence of Carotenoid-producing Enterococcus gilvus CR1 Isolated from Raw Cow's Milk
Submitted (11-JUL-2018) Institute of Livestock and Grassland Science, NARO, National Agriculture and Food Research Organization, 2 Ikenodai, Tsukuba 305-0901, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nCP030934.1.\nBacteria and source DNA available from NILGS, 2 Ikenodai, Tsukuba,\nIbaraki, Japan.\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 :: HGAP v. Ver.2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 1058.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/18/2023 04:51:09\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,860\nCDSs (total) :: 3,772\nGenes (coding) :: 3,728\nCDSs (with protein) :: 3,728\nGenes (RNA) :: 88\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 66\nncRNAs :: 4\nPseudo Genes (total) :: 44\nCDSs (without protein) :: 44\nPseudo Genes (ambiguous residues) :: 0 of 44\nPseudo Genes (frameshifted) :: 23 of 44\nPseudo Genes (incomplete) :: 21 of 44\nPseudo Genes (internal stop) :: 12 of 44\nPseudo Genes (multiple problems) :: 10 of 44\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_002301650.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
type I restriction endonuclease subunit R
COORDINATES: similar to AA sequence:RefSeq:WP_015543624.1
GO:0009986 - cell surface [Evidence IEA]
LPXTG cell wall anchor domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002337567.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002337568.1
COORDINATES: similar to AA sequence:RefSeq:WP_002341371.1
COORDINATES: similar to AA sequence:RefSeq:WP_010749154.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002318452.1
iron export ABC transporter permease subunit FetB
COORDINATES: similar to AA sequence:RefSeq:WP_016178682.1
GO:0004349 - glutamate 5-kinase activity [Evidence IEA]
GO:0006561 - proline biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016178681.1
COORDINATES: similar to AA sequence:RefSeq:WP_010744280.1
COORDINATES: similar to AA sequence:RefSeq:WP_002306105.1
COORDINATES: similar to AA sequence:RefSeq:WP_010744282.1
GO:0030163 - protein catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017370594.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025304.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016627749.1
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_000997695.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002405176.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013094.2
COORDINATES: protein motif:HMM:NF025819.2
COORDINATES: protein motif:HMM:NF037745.2
COORDINATES: similar to AA sequence:RefSeq:WP_000873661.1
COORDINATES: similar to AA sequence:RefSeq:WP_002989471.1
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:NF012655.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009754899.1
GO:0036211 - protein modification process [Evidence IEA]
class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI
COORDINATES: similar to AA sequence:RefSeq:WP_076611651.1
COORDINATES: similar to AA sequence:RefSeq:WP_064305258.1
IS6-like element IS1216 family transposase
COORDINATES: protein motif:HMM:NF025713.2
COORDINATES: similar to AA sequence:RefSeq:WP_002339788.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_002344896.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611172.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018782167.1
COORDINATES: similar to AA sequence:RefSeq:WP_005237742.1
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_016629602.1
COORDINATES: similar to AA sequence:RefSeq:WP_005237640.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782321.1
primase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002333827.1
COORDINATES: similar to AA sequence:RefSeq:WP_002337530.1
COORDINATES: similar to AA sequence:RefSeq:WP_016180087.1
COORDINATES: similar to AA sequence:RefSeq:WP_010744703.1
COORDINATES: similar to AA sequence:RefSeq:WP_010744704.1
COORDINATES: similar to AA sequence:RefSeq:WP_016180090.1
COORDINATES: similar to AA sequence:RefSeq:WP_016180091.1
COORDINATES: similar to AA sequence:RefSeq:WP_010739307.1
PTS system mannose/fructose/sorbose family transporter subunit IID
COORDINATES: similar to AA sequence:RefSeq:WP_002324826.1
COORDINATES: similar to AA sequence:RefSeq:WP_010744709.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-54-dependent transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016629716.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00230
T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_002287678.1
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.
MetQ/NlpA family ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_002291321.1
COORDINATES: similar to AA sequence:RefSeq:WP_000591175.1
COORDINATES: similar to AA sequence:RefSeq:WP_002295591.1
COORDINATES: similar to AA sequence:RefSeq:WP_000108743.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015543629.1
COORDINATES: similar to AA sequence:RefSeq:WP_002401482.1
COORDINATES: similar to AA sequence:RefSeq:WP_002333002.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782381.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002326830.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782380.1
COORDINATES: similar to AA sequence:RefSeq:WP_002325622.1
COORDINATES: similar to AA sequence:RefSeq:WP_000002668.1
COORDINATES: similar to AA sequence:RefSeq:WP_002301627.1
COORDINATES: similar to AA sequence:RefSeq:WP_002325625.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782375.1
CagC family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_002325626.1
COORDINATES: similar to AA sequence:RefSeq:WP_002332650.1
COORDINATES: similar to AA sequence:RefSeq:WP_002425003.1
COORDINATES: similar to AA sequence:RefSeq:WP_000875579.1
COORDINATES: similar to AA sequence:RefSeq:WP_015543617.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782370.1
COORDINATES: similar to AA sequence:RefSeq:WP_001085135.1
COORDINATES: similar to AA sequence:RefSeq:WP_002325630.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010750198.1
COORDINATES: similar to AA sequence:RefSeq:WP_002339803.1
COORDINATES: similar to AA sequence:RefSeq:WP_002339802.1
COORDINATES: similar to AA sequence:RefSeq:WP_002301645.1
COORDINATES: similar to AA sequence:RefSeq:WP_002339800.1
COORDINATES: similar to AA sequence:RefSeq:WP_002377197.1
COORDINATES: similar to AA sequence:RefSeq:WP_002301648.1
GO:0015666 - restriction endodeoxyribonuclease activity [Evidence IEA]; GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]; GO:0009307 - DNA restriction-modification system [Evidence IEA]
type I restriction-modification system subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_018507927.1
GO:0006304 - DNA modification [Evidence IEA]