Rhodoferax koreense strain DCY-110 plasmid unnamed2.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Comamonadaceae; Rhodoferax.
Submitted (13-JAN-2017) College of Health Science, Korea University, Anamro, Seoul 02841, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP019238.1.\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 Date :: 21-DEC-2016\nAssembly Method :: PacBio SMRT Analysis v. v2.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 146.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/12/2023 01:38:27\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) :: 5,519\nCDSs (total) :: 5,460\nGenes (coding) :: 5,385\nCDSs (with protein) :: 5,385\nGenes (RNA) :: 59\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 75\nCDSs (without protein) :: 75\nPseudo Genes (ambiguous residues) :: 0 of 75\nPseudo Genes (frameshifted) :: 40 of 75\nPseudo Genes (incomplete) :: 54 of 75\nPseudo Genes (internal stop) :: 6 of 75\nPseudo Genes (multiple problems) :: 21 of 75\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:WP_003379522.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008921974.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005797953.1
COORDINATES: similar to AA sequence:RefSeq:WP_020200937.1
COORDINATES: similar to AA sequence:RefSeq:WP_011517526.1
COORDINATES: similar to AA sequence:RefSeq:WP_011517525.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612070.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017160511.1
COORDINATES: similar to AA sequence:RefSeq:WP_007974210.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011345582.1
COORDINATES: similar to AA sequence:RefSeq:WP_017173692.1
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_011178411.1
COORDINATES: similar to AA sequence:RefSeq:WP_001665065.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798696.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798697.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798698.1
transglycosylase SLT domain-containing protein
probable role in the formation of the mating lock (cell-cell contact between donor and recipient) during conjugation on the basis that TrbM shows homology to Haemophilus influenzae adhesin and has an export signal sequence
COORDINATES: similar to AA sequence:RefSeq:WP_010890138.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_011114051.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_000644148.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009292 - horizontal gene transfer [Evidence IEA]
mating pair formation and entry exclusion
COORDINATES: similar to AA sequence:RefSeq:WP_000802794.1
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_011114050.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798704.1
COORDINATES: similar to AA sequence:RefSeq:WP_000753228.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_006122481.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_010676131.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114046.1
COORDINATES: similar to AA sequence:RefSeq:WP_000132020.1
COORDINATES: similar to AA sequence:RefSeq:WP_000283041.1
COORDINATES: similar to AA sequence:RefSeq:WP_000019167.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114072.1
COORDINATES: similar to AA sequence:RefSeq:WP_011117139.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012207631.1
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_011137973.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114068.1
COORDINATES: similar to AA sequence:RefSeq:WP_011117141.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913627.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890114.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478184.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890112.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890110.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114061.1
DNA binding protein involved in transcriptional regulation
COORDINATES: similar to AA sequence:RefSeq:WP_010890108.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_011342948.1
COORDINATES: similar to AA sequence:RefSeq:WP_000664557.1
COORDINATES: similar to AA sequence:RefSeq:WP_000826922.1
COORDINATES: similar to AA sequence:RefSeq:WP_000718516.1
COORDINATES: similar to AA sequence:RefSeq:WP_011304098.1
COORDINATES: similar to AA sequence:RefSeq:WP_001127128.1
COORDINATES: similar to AA sequence:RefSeq:WP_000426567.1
conjugal transfer transcriptional regulator TraJ
COORDINATES: similar to AA sequence:RefSeq:WP_011137971.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011655356.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000086826.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: similar to AA sequence:RefSeq:WP_011114056.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122510.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122509.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_086558120.1
Tn3-like element IS1071 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_012838311.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
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_008328818.1
IS91-like element ISPps1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000904941.1
COORDINATES: similar to AA sequence:RefSeq:WP_005797960.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875627.1