Alteromonas mediterranea strain RG65 plasmid MRG65-300, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Alteromonadales; Alteromonadaceae; Alteromonas/Salinimonas group; Alteromonas.
Networking in microbes: conjugative elements and plasmids in the genus Alteromonas
Submitted (09-NOV-2016) Produccion Vegetal y Microbiologia, Universidad Miguel Hernandez, Ctra. Alicante-Valencia N 332, s/n, San Juan de Alicante, Alicante 03550, Spain
REFSEQ INFORMATION: The reference sequence is identical to\nCP018030.1.\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 :: IDBA v. 1.1.1\nGenome Coverage :: 20X\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/29/2022 04:13:57\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) :: 4,089\nCDSs (total) :: 3,994\nGenes (coding) :: 3,978\nCDSs (with protein) :: 3,978\nGenes (RNA) :: 95\nrRNAs :: 8, 5, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 5, 6 (5S, 16S, 23S)\ntRNAs :: 72\nncRNAs :: 4\nPseudo Genes (total) :: 16\nCDSs (without protein) :: 16\nPseudo Genes (ambiguous residues) :: 0 of 16\nPseudo Genes (frameshifted) :: 1 of 16\nPseudo Genes (incomplete) :: 16 of 16\nPseudo Genes (internal stop) :: 2 of 16\nPseudo Genes (multiple problems) :: 3 of 16\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015068678.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006990836.1
COORDINATES: protein motif:HMM:NF012920.2
COORDINATES: similar to AA sequence:RefSeq:WP_007636508.1
COORDINATES: similar to AA sequence:RefSeq:WP_015068526.1
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: protein motif:HMM:NF012694.2
type II secretion system F family protein
COORDINATES: protein motif:HMM:TIGR00229.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: protein motif:HMM:NF024754.2
COORDINATES: protein motif:HMM:NF024498.2
thioredoxin fold domain-containing protein
COORDINATES: protein motif:HMM:NF013930.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003896 - DNA primase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
CHC2 zinc finger domain-containing protein
COORDINATES: protein motif:HMM:NF023580.2
COORDINATES: protein motif:HMM:NF012245.2
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: protein motif:HMM:NF039449.1
COORDINATES: similar to AA sequence:RefSeq:WP_016241558.1
COORDINATES: similar to AA sequence:RefSeq:WP_011496300.1
COORDINATES: similar to AA sequence:RefSeq:WP_004582310.1
COORDINATES: similar to AA sequence:RefSeq:WP_008219738.1
COORDINATES: protein motif:HMM:NF016362.2
COORDINATES: protein motif:HMM:NF020341.2
COORDINATES: protein motif:HMM:NF025085.2
COORDINATES: similar to AA sequence:RefSeq:WP_014781150.1
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:NF024977.2
COORDINATES: similar to AA sequence:RefSeq:WP_012519719.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015068052.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_014951107.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009770595.1
COORDINATES: similar to AA sequence:RefSeq:WP_004642156.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: protein motif:HMM:NF024703.2
helicase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:TIGR03115.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011466830.1
phosphate ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF014442.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF040044.1
COORDINATES: protein motif:HMM:NF019151.2
excalibur calcium-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019023005.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: protein motif:HMM:NF012372.2
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015559.2
COORDINATES: similar to AA sequence:RefSeq:WP_005371825.1
GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
Dam family site-specific DNA-(adenine-N6)-methyltransferase
COORDINATES: protein motif:HMM:NF006615.0
GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF025438.2
COORDINATES: protein motif:HMM:NF013379.2
COORDINATES: protein motif:HMM:NF003009.0
GO:0002953 - 5'-deoxynucleotidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF018028.2
COORDINATES: protein motif:HMM:NF016370.2
COORDINATES: protein motif:HMM:NF012354.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF012339.2
2Fe-2S iron-sulfur cluster binding domain-containing protein
COORDINATES: protein motif:HMM:TIGR01051.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]; GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF016281.2
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF019880.2
COORDINATES: protein motif:HMM:NF022835.2
COORDINATES: protein motif:HMM:NF023713.2
DotH/IcmK family type IV secretion protein
COORDINATES: protein motif:HMM:NF025241.2
COORDINATES: protein motif:HMM:NF028126.2
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:NF028242.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF013618.2
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF012485.2
COORDINATES: protein motif:HMM:NF020384.2
COORDINATES: protein motif:HMM:NF018148.2
COORDINATES: protein motif:HMM:NF019421.2
COORDINATES: protein motif:HMM:NF015140.2
COORDINATES: protein motif:HMM:TIGR00614.1
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024573.2
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: protein motif:HMM:NF024601.2
COORDINATES: protein motif:HMM:NF024108.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:TIGR04346.1
COORDINATES: similar to AA sequence:RefSeq:WP_003659331.1
COORDINATES: protein motif:HMM:NF017300.2
GO:0006274 - DNA replication termination [Evidence IEA]
DNA replication terminus site-binding protein
COORDINATES: protein motif:HMM:NF013964.2
GO:0004519 - endonuclease activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018869537.1
COORDINATES: similar to AA sequence:RefSeq:WP_018984928.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011220503.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015068675.1