Rhodoferax antarcticus strain DSMZ24876 plasmid unnamed1.
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\nCP019241.1.\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 :: PacBio SMRT Analysis v. v2.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 268.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 01:57:56\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) :: 3,977\nCDSs (total) :: 3,917\nGenes (coding) :: 3,751\nCDSs (with protein) :: 3,751\nGenes (RNA) :: 60\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 166\nCDSs (without protein) :: 166\nPseudo Genes (ambiguous residues) :: 0 of 166\nPseudo Genes (frameshifted) :: 53 of 166\nPseudo Genes (incomplete) :: 125 of 166\nPseudo Genes (internal stop) :: 42 of 166\nPseudo Genes (multiple problems) :: 45 of 166\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:WP_003064423.1
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.
lipocalin-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014897603.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
ATP-binding cassette domain-containing protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012738.2
GO:0055085 - transmembrane transport [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013517972.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015837 - amine transport [Evidence IEA]
The N-terminal region of this protein, as described by TIGR01726, is a three transmembrane segment that identifies a subfamily of ABC transporter permease subunits, which specificities that include histidine, arginine, glutamine, glutamate, L-cystine (sic), the opines (in Agrobacterium) octopine and nopaline, etc.; frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011463825.1
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019653362.1
COORDINATES: protein motif:HMM:TIGR00254.1
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
sensor domain-containing diguanylate cyclase
COORDINATES: protein motif:HMM:NF013460.2
GO:0009055 - electron transfer activity [Evidence IEA]
cytochrome b/b6 domain-containing protein
COORDINATES: protein motif:HMM:TIGR02595.1
PEP-CTERM sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011806594.1
GO:0046820 - 4-amino-4-deoxychorismate synthase activity [Evidence IEA]
GO:0009396 - folic acid-containing compound biosynthetic process [Evidence IEA]; GO:0008153 - para-aminobenzoic acid biosynthetic process [Evidence IEA]
aminodeoxychorismate synthase component I
COORDINATES: similar to AA sequence:RefSeq:WP_007836583.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018439751.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011875571.1
COORDINATES: similar to AA sequence:RefSeq:WP_014027687.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF013970.2
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011798713.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
frameshifted; 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_011236156.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008852012.1
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_011795413.1
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_005370439.1
COORDINATES: similar to AA sequence:RefSeq:WP_011811926.1
COORDINATES: similar to AA sequence:RefSeq:WP_014267114.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002238686.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_000050481.1
transposase zinc-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011350317.1
COORDINATES: similar to AA sequence:RefSeq:WP_012555993.1
COORDINATES: similar to AA sequence:RefSeq:WP_011803374.1
putative addiction module antidote protein
COORDINATES: similar to AA sequence:RefSeq:WP_013105737.1
COORDINATES: similar to AA sequence:RefSeq:WP_014129874.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
nuclease-related domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011485622.1
COORDINATES: protein motif:HMM:NF021057.2
incomplete; too short partial abutting assembly gap; missing N-terminus; Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.