Cereibacter azotoformans strain SY5 plasmid p3, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Cereibacter.
Isolation, Identification and Complete Genome Analysis of Rhodobacter sphaeroides SY5 with Enhancing Effect on Disease Resistance of Eriocheir sinensis
Submitted (18-DEC-2021) National Pathogen Collection Center for Aquatic Animals, Shanghai Ocean University, No.999,Hucheng ring road, Shanghai 201306, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP090025.1.\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 :: canu v. 1.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 165.02x\nSequencing Technology :: Illumina HiSeq; PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/08/2022 17:54:21\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) :: 4,393\nCDSs (total) :: 4,323\nGenes (coding) :: 4,157\nCDSs (with protein) :: 4,157\nGenes (RNA) :: 70\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 55\nncRNAs :: 3\nPseudo Genes (total) :: 166\nCDSs (without protein) :: 166\nPseudo Genes (ambiguous residues) :: 0 of 166\nPseudo Genes (frameshifted) :: 80 of 166\nPseudo Genes (incomplete) :: 131 of 166\nPseudo Genes (internal stop) :: 25 of 166\nPseudo Genes (multiple problems) :: 61 of 166\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011911232.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
VirB4 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_011911231.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911230.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911229.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_011911228.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911227.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_011911226.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911225.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011911224.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_011908457.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611202.1
GO:0015074 - DNA integration [Evidence IEA]
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.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008120567.1
ADP-ribosylglycohydrolase family protein
COORDINATES: protein motif:HMM:NF025840.2
DarT ssDNA thymidine ADP-ribosyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008120569.1
COORDINATES: similar to AA sequence:RefSeq:WP_007792467.1
COORDINATES: protein motif:HMM:NF012492.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611976.1
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_011911215.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007803547.1
plasmid mobilization relaxosome protein MobC
COORDINATES: similar to AA sequence:RefSeq:WP_011911244.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_011911243.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331420.1
COORDINATES: similar to AA sequence:RefSeq:WP_011836229.1
COORDINATES: similar to AA sequence:RefSeq:WP_015740139.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911241.1
COORDINATES: protein motif:HMM:NF013561.2
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020304263.1
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_011390240.1
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_018859047.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911173.1
GO:0004514 - nicotinate-nucleotide diphosphorylase (carboxylating) activity [Evidence IEA]
GO:0009435 - NAD biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF033564.0
COORDINATES: similar to AA sequence:RefSeq:WP_076612398.1
COORDINATES: similar to AA sequence:RefSeq:WP_005221592.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016446722.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573044.1
COORDINATES: similar to AA sequence:RefSeq:WP_011655415.1
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011911237.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911235.1
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF016820.2
COORDINATES: similar to AA sequence:RefSeq:WP_016921259.1