Niveibacterium microcysteis strain HC41 plasmid unnamed.
Bacteria; Pseudomonadota; Betaproteobacteria; Rhodocyclales; Rhodocyclaceae; Niveibacterium.
Submitted (23-FEB-2021) Laboratory of Molecular Environmental Microbiology, Korea University, Anam-Ro 145, Seongbuk-Gu, Seoul 02841, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP071061.1.\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 :: HGAP v. 3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 163.42x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 05:06:21\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) :: 4,416\nCDSs (total) :: 4,341\nGenes (coding) :: 4,313\nCDSs (with protein) :: 4,313\nGenes (RNA) :: 75\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 57\nncRNAs :: 3\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 14 of 28\nPseudo Genes (incomplete) :: 15 of 28\nPseudo Genes (internal stop) :: 1 of 28\nPseudo Genes (multiple problems) :: 2 of 28\n##Genome-Annotation-Data-END##
type strain of Niveibacterium microcysteis
South Korea: Hapcheon Changnyeong barrage
COORDINATES: protein motif:HMM:NF018675.2
GO:0033103 - protein secretion by the type VI secretion system [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
type VI secretion system baseplate subunit TssG
COORDINATES: similar to AA sequence:RefSeq:WP_014631296.1
GO:0003674 - molecular_function [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
type VI secretion system baseplate subunit TssF
COORDINATES: similar to AA sequence:RefSeq:WP_008449052.1
type VI secretion system baseplate subunit TssE
COORDINATES: similar to AA sequence:RefSeq:WP_011004043.1
type VI secretion system tube protein Hcp
COORDINATES: protein motif:HMM:TIGR03355.1
GO:0033104 - type VI protein secretion system complex [Evidence IEA]
type VI secretion system contractile sheath large subunit
COORDINATES: similar to AA sequence:RefSeq:WP_006384072.1
type VI secretion system contractile sheath small subunit
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:TIGR03352.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
type VI secretion system lipoprotein TssJ
COORDINATES: similar to AA sequence:RefSeq:WP_006395409.1
type VI secretion system baseplate subunit TssK
COORDINATES: similar to AA sequence:RefSeq:WP_019559313.1
type IVB secretion system protein IcmH/DotU
COORDINATES: nucleotide motif:Rfam:14.4:RF00001
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.4:RF02541
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: nucleotide motif:Rfam:14.4:RF00177
COORDINATES: similar to AA sequence:RefSeq:WP_004379779.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019560378.1
GO:0004654 - polyribonucleotide nucleotidyltransferase activity [Evidence IEA]
GO:0006402 - mRNA catabolic process [Evidence IEA]
polyribonucleotide nucleotidyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_011478438.1
GO:0022627 - cytosolic small ribosomal subunit [Evidence IEA]; GO:0000314 - organellar small ribosomal subunit [Evidence IEA]
GO:0003735 - structural constituent of ribosome [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005668562.1
GO:0004730 - pseudouridylate synthase activity [Evidence IEA]
GO:0006400 - tRNA modification [Evidence IEA]
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014237749.1
GO:0019843 - rRNA binding [Evidence IEA]
GO:0006396 - RNA processing [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006402062.1
GO:0003743 - translation initiation factor activity [Evidence IEA]
GO:0006413 - translational initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012432652.1
GO:0006353 - DNA-templated transcription termination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011239104.1
GO:0042274 - ribosomal small subunit biogenesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018989824.1
GO:0009982 - pseudouridine synthase activity [Evidence IEA]
GO:0001522 - pseudouridine synthesis [Evidence IEA]
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_015435862.1
GO:0005515 - protein binding [Evidence IEA]
GO:0007059 - chromosome segregation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018605820.1
GO:0051301 - cell division [Evidence IEA]; GO:0007059 - chromosome segregation [Evidence IEA]