Sphingomonas morindae strain NBD5 plasmid p2, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingomonas.
Genomic Analysis of Sphingopyxis sp. USTB-05 for Biodegrading Cyanobacterial Hepatotoxins
Submitted (12-OCT-2021) University of Science and Technology Beijing, School of Chemistry and Biological Engineering, 30 Xueyuan Road, Beijing 100083, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP084933.1.\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 :: SPAdes v. v3.6.2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 360.0x\nSequencing Technology :: Illumina; PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 07/26/2023 04:20:09\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,996\nCDSs (total) :: 3,933\nGenes (coding) :: 3,896\nCDSs (with protein) :: 3,896\nGenes (RNA) :: 63\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 51\nncRNAs :: 3\nPseudo Genes (total) :: 37\nCDSs (without protein) :: 37\nPseudo Genes (ambiguous residues) :: 0 of 37\nPseudo Genes (frameshifted) :: 7 of 37\nPseudo Genes (incomplete) :: 30 of 37\nPseudo Genes (internal stop) :: 3 of 37\nPseudo Genes (multiple problems) :: 3 of 37\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_010189216.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010189218.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_004213420.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054706.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:TIGR01549.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF023218.2
GO:0016798 - hydrolase activity, acting on glycosyl bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007683474.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007683476.1
COORDINATES: similar to AA sequence:RefSeq:WP_017501680.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010339216.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015460617.1
COORDINATES: similar to AA sequence:RefSeq:WP_007406350.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612308.1
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_019370852.1
COORDINATES: similar to AA sequence:RefSeq:WP_007563178.1
GO:0009341 - beta-galactosidase complex [Evidence IEA]
GO:0004565 - beta-galactosidase activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611376.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006329062.1
COORDINATES: similar to AA sequence:RefSeq:WP_011383366.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011508718.1
COORDINATES: similar to AA sequence:RefSeq:WP_007674740.1
COORDINATES: protein motif:HMM:NF017416.2
COORDINATES: protein motif:HMM:NF013799.2
COORDINATES: protein motif:HMM:TIGR01782.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016648.2
COORDINATES: similar to AA sequence:RefSeq:WP_020817622.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_012452059.1
COORDINATES: similar to AA sequence:RefSeq:WP_012452103.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018390189.1